Gene detail

Detailed information of FUN_004845-T1 in Siderastrea siderea

Genomic Location: contig_3:19516133...19540772
NR annotation: no NCBI-NR hit recorded
Species Siderastrea siderea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

FUN_004845-T1

ATGTTTAAGTTTTTTTCAAGGACACGAGACAGGAGCTCAGGTCATTTGAAGGACAAGCTCGGCCAGGATTTGTTTCTCTTCAACAAGGCTGTAGAGCATGGATTTCCACCGAAACCCTCAGCAATTGCTCACGATCCAGTTCTAAACTTGTTGGCTGTCGGAACAGATAGTGGACTGCTGAAGATTTTTGGCCGGCCTGGAGTGGAACTTTCTGCTCGCCATCAGGAGGAAACAGTGATCCAAGAGTTGCATTTTCTGCCAGAACAGGGACGTATCATCAGCGTTTGTGACGATGGGGAACAGAACACAATCCATCTTTGGGAGGTCAACAAGAAGGAAGGGAAATCTGTCCTGGAGGAAGTCAAGACATGCACCTTGGAGGGAAGGCTAAAGAAGATCTCTGTCTGCTGTCTGTCTATGAAAACCAATCGTCTTTACCTCGGTACGGAGGGTGGTAACATCTATCTGCTGGACATTAACTCGTTTGAACTCCAAGAGTACATCATATACCAGGATGTTGTAATGCAAAGTGTTCAAGAAGAGAGCAAGACCAATGCAGGCTCTGTGGAGGCTATTCAGGAACATCCAGATGATTCAAACAAGATTTTGATTGGCTACAAGAAAGGTTTGATTGTTCTGTGGAATCACGAGAGGTGTAGTGTCCAAGCAACATTCAGCGTCCAATCATCTGAACAGCCACAGGAGGTGGAAGGCGTCAGCTGGCATTCTGACGGAACAAAGTTCATCAGCGCCCATGCTGACGGCAGCCTCACAAAGTGGACTGTCGAGGGAGGTTTAGAAATCCCCAAGGCAGTCACCCCACTGGGTCCGTTCCCCTGTAAGGCAATCACTAAAGTCGAGTGGAGCAGCTCTTCTGTTTTCTTCAGTGGCGGGATGCCACGTGCAAGTTATGGAGACAGACACTGTGTGTCTCTTATCCAAGATACAAACTTGGTTGAAGGAGGTGACAACACACCCCAGGTGGCATTTGACTTCACTTCTCGTGTTGTGGACTTTTTCACCGTGAAAAAGGAAGGAGACGAACCGGCTTATTTAGTGGTGTTGTGTGAGGAGGAATTAGTTGTCATTGATTTGTTGACTAAGGATACAGGGTTTCCCACTTTCATGAAGCCATACCTGGTGTGCCTGCACTCCTCTCCGATCACATGTTCAAACCACGTCCATGATTGTCCACAGAGTTTGTTTGACCAAATAGAAACAGCAGGAAGAAAACAACTGGAAACCGACTTTTCAAATGAGAGCTGGCCCATTACAGGAGGAAAAACTTTGATTGAAGGATCTGAAACCAAGGATCTTCTTGTTACAGGacaTGAAGATGGATCAGTCAACTTTTGGGATGTTTCCCAACTTGAAATGCGCCTCATCTACACTCTTCACTCTGCCAAATATTTTGTGGGCGAACACGAGAGCCAAGATTCTGAGACCCGAGATGCCGAAGAGGAAGTGTGGCCGCCATTCAAGAAAGTTGGCAACTACTGTCCATACTCTGATGATCCGCGATTTGCTGTGACAAAGATCATCTTCTCCTCAGCTGCAAAGTCCTTGACAGTGGCTGGAAATGGTGGACAGGTCCTCATATTTGACCTCACAGAAGAAGAAACGAGTGTAGAAGTACAGATGATTGAGATTGACTTCACGGAGGACAAGGAGAACTTCCAGTGGAAGGGTCATGGACCATTGCTTCCAAAGGAGGGTTCCATCTCAGTCCCAGCAGGCTTCAAGCTGCAAACGGGTCTTCAGCTTATCCCCGCTGCACCAGTCAGTGCACTGGCGGTGGAAACTCGTTGGGGACTCTTGGCAGCTGGTACCATCCATGGGTTTATCTTATACGATTACCTCAGTAAGAAGACAGTCAGTACCAAATGGACAGTGAGTCAAGAAACTGACAGTGGAGAGCGtctttcaagaagaaaatccCTTAAGGAGAGCATCCGAAGATCTTTCCGCCGATTGCGTTCCCGTAAAGGATCTCGGGGTGGTTCAGAAAAAACACCCAAAAGGGAAGGAGAGGCTCCAGCATCACCCACACAGGAGGCAGTGGCCTCACCTGTGTCCCGGCTTGTGGAGGAGAGCCGTGTGGATGAGAGTGTCCTGAGCATGGTGCGCTGTTTGTATTTTGTGGAAACCTTTATCAGAGATGGAGTTCACCACTGCCCCTCACTGTGGGCGGGAACCAATGCCGGGCACATCTATGTGTGCTACCTGACCATTCCTGAGGCGGAGAAGCGATCTGAAGAGGAAGTTCAAGTGGAGATTGGCAAGGAAATCAAACTTAAGCACAAAGCACCTGTGGTGTCTATTTTTGTGGTTGATAAGGAAGGAATGCCATTGCTTGGTGATGTTGTGGAGGACCAAGGCAAAGAACCAGACATGAGTGGCACGCATTCCTTAGTGATATGCTCTGAAGAACAGTTTAAGGTCTTTAGTCTTCCACACTTGAAGGCCCGCAACAAAGAGAAACTCACAGCTATTGATGGTTCAAGAGTCCGCAAGATCGGCTTGATTAACGTCAGAAGCAAGAATGATGATTCCGAAATGGTTTATCACTGCCTGGCTTGCGTAAGCAATCAAGGAGATCTGATCGTTTATTCCATTCCCAACTTGAAGCTTCAGGTCAAGGCATCAGCCATGAGGAAGTCTGATGTGGATGCTATTAGATCCTTGGTGTTCTCTGTCAGTGGCCAAGGATTCTATCTGAGCTCCCGAAGTGAGATGCAAAGGTTTACACTCTCTGCAACAGACTTGTTGAAACCAGATTGTGTCTTGGATCTTGCTGAAGGAATGAGACCTCCTGAACCAGAACCAGAGGTCATCACTGAAGAGcatgaagaagaaaagaaggaaagaaaaagctcAACATCGAGCTCTTCATCATCGTCTTCATCATCTGATGATGAGCAGgatgaagagaaaaaaaagaagaagaaagagaaaaaggaaaagaagaagaaggctaAAGAAGCTGAAGCTGCTGCTGTGGCTGTTACCGCAACAGAGGTGGAGGCTGTTGTTCCAGAAGTGGTAGAGGAAAAGAAGGAAGAAGCTGAAGATAAGAAGGAAGAAGTGGAGGAGAAGAAAGAAGAGTTGGAAGAAAAGGCAGATGATGCTGCTCTTGTGCTAGCCGGTGAAGGGGGAGCAGCTGTAACTGAGAGGGTTGTCATCACGGAGAAAAGATCCTACACACACCAGTCATCCTCATCTGAGGATAAAGATCTCCCAGAACAAATGTTTGGTGAGGAGTCCAGCACGTTTTCCTCTTCAGTCACCACAACCACTCGCGTTGTCACCTCTAAACAAGTCATCAGTTCCTCTTCTACAACAGAGCGAATAATCTCATCAGATGGGACCACAATAGAAGCACTTGAGAATGGAGAATCTGAGAAGCTTATGTTGAATGACTCTGACCTTCAGAAGGCAGCTGAAGATATGTTAAATGATAAACAAGATGAGGTTGAAGCTTCCAGTTGA

Transcript

FUN_004845-T1

CTTTAAATCAACTTCGTTTTGTTGTTACAACTTCGTTTTGTTGTTACAAAAGAAAACCTTGACACTGATCTTACCGCATATTAGACCGACCGACATCTGATAGGGTTCAGTTCAAATTTTGAACTTAatcaggaagaaaaagaagacagtggaaagaaaatagtaaaaagaaggagaaataattgcATGAGAAATATTAAATTGGGGATCTTGTCCTAAAATGACCTAataattatttcctttttgcatttaaaaaaatgtcgTAACTACTAAAAATACACCCATATAGTAAGATAATCTTCAACTTGCCCAAACGAGATGGACCGAGCGattcgataaaaaaaaaaatcaccaccTTCATCATTACCTTTTTCCAGGAGAATTACGGTATACGTGCAAATTGATAAAAATTCGAAATCCAACTTACGAGGTACTTAACAGATTGTTTCAGCGATAGGTCATCACTGTAGATATTGTCaatatttacatgtaaaatttCAGAATGGCGTACCTAAACAAATTTTGGGTAGATTTTGCGAAAAGGGTAATGAAATAGGTTAAAATTATCGTGTACTCTGGCGTCTTTTTTCTTAACATTCCAAGTTTAAACCGAAGGACAGATTCGTCTCGATTTTACTGGGTAACGTCGGTTAGcttcttttttttcagtgtCTTTTTTTACATTCCAAGTTCAAACCAAAAGAGAGATTCGCCTCGATTTTACTGAGTAACGTTGGTTAGCTTCCGCTGCCAATTTACaatttttgctaaaaatttcGATGAGTCACTGAATTGTTTACTCTTCAGCAGTTTTAGACATACGTCTATTGCCACCCCCAAAGAAACCTTGCGGGCGAACCAGGAAGTCTTTACGTCAGCGCACAAGAAATATCCCGTGTTCAGAAATCCGattaaaatttctttaaaaaaacgcGCTTTTTAAGGACCATAGTTCAAATTAACATATGATATGGGTGCAAAGTTCAGGCCGGCCACCGTCGCGCAAAACACCCCGCATCAAGACCAAACACAGACAGAAGTTTTACAAAGTTCACTGCAACCTTGCGTCATCTCCAAGTGTTTACGTTTTATATGCTGGAGCCGCTCAGAATACTCTTTGTTCGCTTCCTTTTGTTTTACAGTTAGGGGGAAATAATCCGTGCTATTGAGCAGATTTTTTTATCACATTTACAGTGTTAGTTTTATTTAGCCGTTCTGGCAAAATGCGGCTGTTGTGGTTTCCATTCGCCTGTACTGTTTTGTTGTGTCGTGTCCGGGTTTTGTTACAAAGCAATCGGCTGAGATCTCATGAAGTGTTGATGAGACTCCCGGTATCAAACATTCTTCAtcacacaagaaaaaaaattcacaaaataaAGCAATTCACCTCAAGTGTAACTTCCTCTATTGAAGTATGAAAGCTATTAAAATTTTCCTTTATAAAATATGCATATTTATAACGAAAGTTCTTGACACGTGTAACCATTGAATTAAGGTAATCCAACGGAAGCGACAATCCTAAAAATTTTACCTTTCCCTCCGCACGAATAGATCTTATATTTACATTTTTTGTGGAAAACTAAGATTAATATGTTTAGAATAATCGCAGCGGGAATATAAATAAATGTGGTtcataattttacatttttgtccGCAAATTAAATGGGATTGCAGACACGCATCAATCGCAAATATCTAAGCATGTCAAAATTAACTCGCACACAATACATCCACATCACGCGCCCCTAAACAAATATTTGTCACAAAAGACACTTCTTGAACGTTTTCAAACTAAATTTATTCACGCTAAAAAAGTATTCAGGCTAGTTTattctttggttttgtttgcgGAGTTTTGCCAAGCCAATCCTGAGCAGCTGAGCTGTTTTTTCGGCGCGCTTTTTAATCACTCTTCGCATTCTGATTGGTCCAATTGTCTTTGATTGACAAGGCGTCACATGACCCAAACCGCAATTTCGCAAAGGCGTGAttgcatttgattttcaaacgaGTCTCTCGGTGTAGTCTCTCTACTCGACCTTCCTGATAAATTATTCGTCTCTGTGAAGTCGTCGCATTTCAGTTCTTTGGGAAGGAGACCGCTCTAGCAATGTTTAAGTTTTTTTCAAGGACACGAGACAGGAGCTCAGGTCATTTGAAGGACAAGCTCGGCCAGGATTTGTTTCTCTTCAACAAGGCTGTAGAGCATGGATTTCCACCGAAACCCTCAGCAATTGCTCACGATCCAGTTCTAAACTTGTTGGCTGTCGGAACAGATAGTGGACTGCTGAAGATTTTTGGCCGGCCTGGAGTGGAACTTTCTGCTCGCCATCAGGAGGAAACAGTGATCCAAGAGTTGCATTTTCTGCCAGAACAGGGACGTATCATCAGCGTTTGTGACGATGGGGAACAGAACACAATCCATCTTTGGGAGGTCAACAAGAAGGAAGGGAAATCTGTCCTGGAGGAAGTCAAGACATGCACCTTGGAGGGAAGGCTAAAGAAGATCTCTGTCTGCTGTCTGTCTATGAAAACCAATCGTCTTTACCTCGGTACGGAGGGTGGTAACATCTATCTGCTGGACATTAACTCGTTTGAACTCCAAGAGTACATCATATACCAGGATGTTGTAATGCAAAGTGTTCAAGAAGAGAGCAAGACCAATGCAGGCTCTGTGGAGGCTATTCAGGAACATCCAGATGATTCAAACAAGATTTTGATTGGCTACAAGAAAGGTTTGATTGTTCTGTGGAATCACGAGAGGTGTAGTGTCCAAGCAACATTCAGCGTCCAATCATCTGAACAGCCACAGGAGGTGGAAGGCGTCAGCTGGCATTCTGACGGAACAAAGTTCATCAGCGCCCATGCTGACGGCAGCCTCACAAAGTGGACTGTCGAGGGAGGTTTAGAAATCCCCAAGGCAGTCACCCCACTGGGTCCGTTCCCCTGTAAGGCAATCACTAAAGTCGAGTGGAGCAGCTCTTCTGTTTTCTTCAGTGGCGGGATGCCACGTGCAAGTTATGGAGACAGACACTGTGTGTCTCTTATCCAAGATACAAACTTGGTTGAAGGAGGTGACAACACACCCCAGGTGGCATTTGACTTCACTTCTCGTGTTGTGGACTTTTTCACCGTGAAAAAGGAAGGAGACGAACCGGCTTATTTAGTGGTGTTGTGTGAGGAGGAATTAGTTGTCATTGATTTGTTGACTAAGGATACAGGGTTTCCCACTTTCATGAAGCCATACCTGGTGTGCCTGCACTCCTCTCCGATCACATGTTCAAACCACGTCCATGATTGTCCACAGAGTTTGTTTGACCAAATAGAAACAGCAGGAAGAAAACAACTGGAAACCGACTTTTCAAATGAGAGCTGGCCCATTACAGGAGGAAAAACTTTGATTGAAGGATCTGAAACCAAGGATCTTCTTGTTACAGGacaTGAAGATGGATCAGTCAACTTTTGGGATGTTTCCCAACTTGAAATGCGCCTCATCTACACTCTTCACTCTGCCAAATATTTTGTGGGCGAACACGAGAGCCAAGATTCTGAGACCCGAGATGCCGAAGAGGAAGTGTGGCCGCCATTCAAGAAAGTTGGCAACTACTGTCCATACTCTGATGATCCGCGATTTGCTGTGACAAAGATCATCTTCTCCTCAGCTGCAAAGTCCTTGACAGTGGCTGGAAATGGTGGACAGGTCCTCATATTTGACCTCACAGAAGAAGAAACGAGTGTAGAAGTACAGATGATTGAGATTGACTTCACGGAGGACAAGGAGAACTTCCAGTGGAAGGGTCATGGACCATTGCTTCCAAAGGAGGGTTCCATCTCAGTCCCAGCAGGCTTCAAGCTGCAAACGGGTCTTCAGCTTATCCCCGCTGCACCAGTCAGTGCACTGGCGGTGGAAACTCGTTGGGGACTCTTGGCAGCTGGTACCATCCATGGGTTTATCTTATACGATTACCTCAGTAAGAAGACAGTCAGTACCAAATGGACAGTGAGTCAAGAAACTGACAGTGGAGAGCGtctttcaagaagaaaatccCTTAAGGAGAGCATCCGAAGATCTTTCCGCCGATTGCGTTCCCGTAAAGGATCTCGGGGTGGTTCAGAAAAAACACCCAAAAGGGAAGGAGAGGCTCCAGCATCACCCACACAGGAGGCAGTGGCCTCACCTGTGTCCCGGCTTGTGGAGGAGAGCCGTGTGGATGAGAGTGTCCTGAGCATGGTGCGCTGTTTGTATTTTGTGGAAACCTTTATCAGAGATGGAGTTCACCACTGCCCCTCACTGTGGGCGGGAACCAATGCCGGGCACATCTATGTGTGCTACCTGACCATTCCTGAGGCGGAGAAGCGATCTGAAGAGGAAGTTCAAGTGGAGATTGGCAAGGAAATCAAACTTAAGCACAAAGCACCTGTGGTGTCTATTTTTGTGGTTGATAAGGAAGGAATGCCATTGCTTGGTGATGTTGTGGAGGACCAAGGCAAAGAACCAGACATGAGTGGCACGCATTCCTTAGTGATATGCTCTGAAGAACAGTTTAAGGTCTTTAGTCTTCCACACTTGAAGGCCCGCAACAAAGAGAAACTCACAGCTATTGATGGTTCAAGAGTCCGCAAGATCGGCTTGATTAACGTCAGAAGCAAGAATGATGATTCCGAAATGGTTTATCACTGCCTGGCTTGCGTAAGCAATCAAGGAGATCTGATCGTTTATTCCATTCCCAACTTGAAGCTTCAGGTCAAGGCATCAGCCATGAGGAAGTCTGATGTGGATGCTATTAGATCCTTGGTGTTCTCTGTCAGTGGCCAAGGATTCTATCTGAGCTCCCGAAGTGAGATGCAAAGGTTTACACTCTCTGCAACAGACTTGTTGAAACCAGATTGTGTCTTGGATCTTGCTGAAGGAATGAGACCTCCTGAACCAGAACCAGAGGTCATCACTGAAGAGcatgaagaagaaaagaaggaaagaaaaagctcAACATCGAGCTCTTCATCATCGTCTTCATCATCTGATGATGAGCAGgatgaagagaaaaaaaagaagaagaaagagaaaaaggaaaagaagaagaaggctaAAGAAGCTGAAGCTGCTGCTGTGGCTGTTACCGCAACAGAGGTGGAGGCTGTTGTTCCAGAAGTGGTAGAGGAAAAGAAGGAAGAAGCTGAAGATAAGAAGGAAGAAGTGGAGGAGAAGAAAGAAGAGTTGGAAGAAAAGGCAGATGATGCTGCTCTTGTGCTAGCCGGTGAAGGGGGAGCAGCTGTAACTGAGAGGGTTGTCATCACGGAGAAAAGATCCTACACACACCAGTCATCCTCATCTGAGGATAAAGATCTCCCAGAACAAATGTTTGGTGAGGAGTCCAGCACGTTTTCCTCTTCAGTCACCACAACCACTCGCGTTGTCACCTCTAAACAAGTCATCAGTTCCTCTTCTACAACAGAGCGAATAATCTCATCAGATGGGACCACAATAGAAGCACTTGAGAATGGAGAATCTGAGAAGCTTATGTTGAATGACTCTGACCTTCAGAAGGCAGCTGAAGATATGTTAAATGATAAACAAGATGAGGTTGAAGCTTCCAGTTGAGAAAGGCATTCATTTTAGAAACAGATGGATTCTGTAGGCTCTTCTGATAACGGTAAAGAACACACCAGGGTCAAGGGGAAGGTATTCAAGAGCCCTGGGAAACTGTTCTCAAAGAAAAGCACTGGGCACACGGAGGGAACGGACTCTTGATTTTGGTCTTAGCCTTGTATTCACTACACTACACTAGGGACTTGGATTCACTAAGacgtttattattttgtttttctcgcgCTGGATGACAGCAGCCATTTGGACATTTTTGTAGCTAACAAACAAGAGTAGCTGTTTAGAACATTAGGTTTAATAAGTAGCTGTTTAGAATATTAGGTTTTGTAAGCATAgtagtagttttttttcttttgcttctttttgtgtttttgaaagaCCTATGTCAGTAGATAGATTGTGAAATacacaaaaaagtaatgatGGCAAGCTAGGGTTTAAATAGTTTGATGCCAGCAGTTCTTTGTAATTGCAGAGGTAAATTCCCAGCAAGCTAGAGAGGAATTTTGTGATGCTTTAGGCATCTTTATTTAACTGATTTTTTCTCGTGTCCGTTTGTGAGAATTTTGCATACAATGAGCGTGTCGCCTAAAAGCAAACATACTCTGTTCATTTAGTCACTGAATGCTGTGGTACGgcgcttttcttttttgttctcaattagagTGAACTGTCGACTCGCTTTTTGATTATTCGTTCATCTGTTTTGAATAGCGACACAATTAGATTTTTAACtgtaggataattgttttaagAGTGGCTTCAATTAAAGGTCGTACTTGTAACCTTTCAAT

Protein

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003530 (this species only) · gene tree & orthology
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|CDC20 · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|DWD · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08366 all species →	LLGL	LLGL2	Family	Interproscan
PF08596 all species →	Lgl_C	Lethal giant larvae(Lgl) like, C-terminal	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR013577 all species →	Domain	Lethal giant larvae homologue 2	Interproscan
IPR013905 all species →	Domain	Lethal giant larvae (Lgl)-like, C-terminal domain	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR000664 all species →	Family	Lethal(2) giant larvae protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10241 all species →	LETHAL 2 GIANT LARVAE PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0008593 all species →	Biological Process	regulation of Notch signaling pathway	Interproscan
GO:0019905 all species →	Molecular Function	syntaxin binding	Interproscan
GO:0030864 all species →	Cellular Component	cortical actin cytoskeleton	Interproscan
GO:0030866 all species →	Biological Process	cortical actin cytoskeleton organization	Interproscan
GO:0032878 all species →	Biological Process	regulation of establishment or maintenance of cell polarity	Interproscan
GO:0045159 all species →	Molecular Function	myosin II binding	Interproscan
GO:0050708 all species →	Biological Process	regulation of protein secretion	Interproscan
GO:0051294 all species →	Biological Process	establishment of spindle orientation	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K06094	LLGL; lethal(2) giant larvae protein	-	Membrane trafficking	ko04131	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of FUN_004845-T1 across 85 RNA-seq samples of Siderastrea siderea. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

85Samples

20TPM > 0

7Conditions

356.5Max TPM

26.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
holobiont · low.pH_high.temp	20	4	7.95	71.12
holobiont · low.pH Control.temp	20	2	2.35	31.14
holobiont · control.pH_high.temp	20	5	5.69	48.94
holobiont · control.pH Control.temp	19	3	3.03	24.24
Whole organism	4	4	336.40	356.48
unannotated	1	1	298.25	298.25
live coral tissue/skeleton	1	1	238.14	238.14

Per sample · hover a bar for the full sample record

Show the sample table (85 samples)

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR22214420	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	71.12
SRR22214416	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	41.17
SRR22214423	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	39.87
SRR22214402	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	6.86
SRR22214403	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214404	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214405	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214406	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214407	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214408	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214409	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214410	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214412	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214413	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214414	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214415	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214417	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214418	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214419	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214421	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214438	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	31.14
SRR22214424	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	15.78
SRR22214425	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214426	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214427	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214428	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214429	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214430	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214431	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214432	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214434	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214435	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214436	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214437	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214439	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214440	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214441	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214442	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214443	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214445	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214461	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	48.94
SRR22214462	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	22.53
SRR22214450	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	16.09
SRR22214463	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	14.34
SRR22214459	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	11.84
SRR22214446	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214447	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214448	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214449	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214451	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214452	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214453	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214454	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214456	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214457	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214458	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214460	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214464	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214465	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214467	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214506	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	24.24
SRR22214471	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	19.82
SRR22214400	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	13.42
SRR22214411	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214422	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214433	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214444	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214455	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214466	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214468	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214469	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214470	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214481	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214492	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214524	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214535	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214546	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214547	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214548	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR14295604	Whole organism	Whole organism	not recorded	not recorded	SRP315757	356.48
SRR14295600	Whole organism	Whole organism	not recorded	not recorded	SRP315757	351.47
SRR14295601	Whole organism	Whole organism	not recorded	not recorded	SRP315757	325.38
SRR14295603	Whole organism	Whole organism	not recorded	not recorded	SRP315757	312.27
ERR12861049	unannotated	not recorded	not recorded	not recorded	ERP159209	298.25
SRR12454619	live coral tissue/skeleton	live coral tissue/skeleton	not recorded	not recorded	SRP277390	238.14

Source: CnidoSite RNA-seq expression matrices (SSIDE_TPM, StringTie quantification over 85 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.

Co-expression network

Genes whose expression across the transcriptome samples of Siderastrea siderea tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

Direction	Partners	Most correlated partner	PCC
Positively correlated	3	FUN_045290-T1	0.988411821093256
Negatively correlated	7	FUN_006331-T1	-0.660926398187341

Open this gene in Network Analysis → The network opens with the gene already entered and both directions selected. There you can add up to 9 more genes, switch between the positive and negative network, and export the edge list.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Siderastrea siderea, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.	template found	open →
Expression heatmap	Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.	ready	open →
Gene family / orthogroup	Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.		open →
Gene set analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →