Gene detail

Detailed information of FUN_018561-T1 in Siderastrea siderea

Genomic Location: contig_16:1533329...1561472
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_018561-T1

ATGTCACGTCGAAGAAAGAGTTCGGCAAACACGAAGAAGTCAAAGGATGATACCACAGGTGGTAGTGAATGGACTGAAGAGGAAAAGAGTAGTCTTTCTGATGCTTTAAAAATAGATGGTGGGGAAAATAACTGGCGCTGGATTGCAAGACAAGTTAAAACAAAGACAATGACACAGGTGAAAGAGTTTGCTGAGAAACTTAAGAAAGGAAAGCGCACAGCCAGTGCAAGAAGTGCCTCTCATGAAAAACAAGTTTCAAACAAAAGGCCAATTGCACCAAAAGAAGATGGCCCACTCGAGGGATGGATCAACGCAACAAAACGGTTAAGAGCTGATGATGATGTGGATGGAGCATGCATACCCCAGCAGAATGAAAGATCAAGAAAACAAGAACACCAAGAATCTTCAGACAAGGAAGTCTTTACTGGCAGGACAGACAGAGATGTGAGTGATGAGAGTGATAATGATGACAAGGAAGACTCGCAAGATCCTGTATCCAACAACAACCTGGAACAGCATGAGAGTGTGTTATCATCAGACAGTTGCTCTGACAAAGAGGACCAGTTAAAGAAAATTGACTCTTTTATGgagggccttttgaccaatcagaaacagaTGATGGAGAAATTGTCTCTTTTGGAGTCCAAGCTTGAGAATGTCCGATCCGATGAGGCTTCTTCGCGGACATCAGTTACGGAAATACTTACAAAGATTAACAGTAGACTGGATCAGCTTGATAAAAGTACTTCACATGGTTGTTGTGGAGGACCTGTAATAATTCAAACAACTCCTCATGCTAGTGTTGTACACCAGCCTGTTCTGGATTCTTGCAGTTCTTGTCGTGGTGCTAAACAGAAGGAAAGGCACAGAAGCTCAGTGACTGTTTCTAAAGAAGACAGCATTGCAAATAAGGAGAGGACTGATTTAATTGTACCCAGATCTTTAATTAGGACACCAATGCAAAGTTCACCTGATGCAGGAAACacattgatgaagaaaaattctGGTGACCGTCCTCCTGCAATTCTAATTTTAGACACGCAGGACAAATCTTTGCCCAAGCCACAGGCAGTAACTTCTAATATACACTCTCCTGAAATAACCTCCCATTTGCCCAATGTGTCCTCCACAGCTGAGTCCACAAAGTCAATAAATACATGCGAGCACTCGGTTATTAGTGTTTCTGTGACTAAAACAACCACACCTGTTCCTTCTCGAGAGTCTCTACCAGATGATAATAGGAAGCAGTTTCCAAGAGGAGGAGCTTGTGCTTCAATCATGGAAGGAAGTGGTTCCTTTCCAAATGGGGCCACATCTATCGGTTGGATTGTTAATCAATCTCCCACAGTTGGAACAACTTCTAATACATGTACTAAATCACCTCAAATGGAGCTTTATACTGGTTCAAGATGGCAAAGAGAGCCAGTGTCTGAGCACAGTAACTCTTCTTTTACACCATCACAGCAGAGATTTATGCCCCCTTTAAGGGAAACTGGAGCAGCTCCAATACAGACAACTCCTGTTTCTGTGCTGAAACCTTCATACATCGACCTTCAAAGTACTTTATCAACTTCTCCAGTTTTGTGTACAGTTGTGAAAAATCCTGCCTCTGTAGCAAGGCCTATTCCTGTATGCACCTTGTCAGAAGCTAGACGTTCACCTCAACAAACCAAGGTGGTAGTTAGTAGTTCTAATGCTGGTACTACTGTACCGaaaacaaacagtgaacattGTCCAAGGATTCCACTTCATGGTGTAACAACAACATCATCTCAAACAAGTATACCACCAGGGTATATTACTCTTTCGCATACCACAAATATTCCACCCTCTCCGATTAAAATTCATGGCACTTCGCCTTTGCAACCTCAAACAGTGAAGACGACCATACAGGGAAAAGATTTGCATTTGTCCCCAGCTGCAGGTGCTGTCATTCGAAACACTGCAAATGATGCCAGTGCCAAACAAACTGCAGCATcaccaaaagaaataatgaatgCAGCTATGCTTATCAGCAACTATGTCAGAGAGCACCCCAATAATGAATATCAAGCTGAGTGGCAATCCTGTCTTTCAGCAATTGTCACAGATTATCACAAGAGCCAGAATCGTTCCAGAGGAGACATGCTTCAACTTGTTTCAATTGGCTATAACCCATACGTGGTTGTAACACAGTTTGAACTAGAAGACATGCTGGAAAAATCCAAAGGTCGACCAAAATTCTTTGCACTGCGTCTAGCAGAGAAGCTCTTTGGCATAGATGTGCTGGTCAAATCCACGCCTTATGGGATTGGAGGAAAAGCTGCCCTACATCCAGCAATATTAGATGCCATCAAAGTTGAAGTCCTGCGGAGATTTGCCCCAAACGCGTCAAGTGAAGCACAAACTGCTCTTTGGAAAGCTTGTGTGACCAGCATAGCTCAGAGGTGCAAGAGAGCTCGTAATCCACGTAGAAACAGATCGTCAAGAACAAGGTTCACAAGTGATGATGACGATCTAGGACCACCATCCATGGCAGTTGGTGGGGGAAGTGCAGAGAACAGCTGGCACTGTGAAGAACATGAGGAAAATGATGACTCACATGGTGAATCAGATGAAGATGATGAAGATTATGAGTTAGGAGGTTTGGAGCGGCCGGTTGCAAAGCACACACCACCTCTAGTCAGAATTCCGTCTGATGATGAGCAAGAGACTTCGAAAAGCAGCACTCGGAGTGTTGTGCTCAGCATTGATGGCCGCAGTGTTAGCTGTGTGACACAAGAAAAAGACTCGAGTGTCAGAGAAGAATCATCTGCTGACTCTAGTTCAAAAGAACATGAACCAGAGAGGAATAAGCAGGATATATTACCACCTGGTATTGACCCCGATATCACAGTTGTTCACCTACCATCTAGCTTGCAGGCTTCAGCAGAGCCACAAACCAATCAAACAGATCAGAGACGGAGTCCAGTGCGGAAAAACAGTACGAACAGTATGGCAGCAAGTTGTAGTGATTGCAGTGACTTGGCAGCAGAAGAAAGTGCAAAAGATGAAGCTGAGACTGTCAGTGTTCAGGACCCCAGTGAACATGAAAGTGAAAGCAATCCACAAGAGAAGGATGCTTCAGAAGATGAAAAAGTTCATGAGGATTTGTTAAAAGTGGCACAGAGTATTCATAAGCTAGGTGCATCAACAGATAGCATCACTGTGTCTGGGATCAAAATGACTCCTGACTACTCTCATGTTTTAATTGGTGGAAACCCAAATGTGGCTGTCCCCCGTCAGAAGTATCTAGATGCCCTCACCAGGTCAAGCCAGCCCACACATTTTGCCGTCCGTCTGGCTGAGATAACTTTTGGAGATGATGTGCTGGAGGCATCTACGGTGACTGGTGGCAAACGTGGGACAACGCAGCTTGACCCGATCGTCATCAATGCGATACAAAttgaggTGACAGGCAGGTTTTTAAAGGAcctgacaccagagcagcagaGTGTGATTATGACAATTGCTGCAATGGAACCAACACAATCTGATCCTGGTGGTCAAACACCAGACTATGGCCAGATATACACATTGCTAAGCAGAGTGATGCGGGAACAGCCACCCCCTAACCTCACCCCACTTGatGCGCGTGTAATTCTAGATTTATTAAATGACTTAGAACGGCGGCTTGCTGGTCATGACATCAGCAATCAAGTCAGCTTTGTTGTCAACAAGTACAGAGAAATCATGGCGACAACTCATGTAGAAGCCACTTCTACCACAGGAGGGGTACTCCCTCCACAACAAGCTAGCAGTTCTGATCCAAACAGCAGTGCCAGTAGACCAAAAACACAACTATCTTCTTTAAATCCCCTTAACGTACCTGTGGAATTGCTGAATTTAAAGAAGCGAACTCCAGTGAACCCTAGTTCTCAGCCTCCCCTTCCTGAGAGGACCAAAGAAGCAAATTGA

Transcript

FUN_018561-T1

Protein

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008400 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF11035 all species →	SNAPC2	Small nuclear RNA activating complex (SNAPc), subunit 2	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR017884 all species →	Domain	SANT domain	Interproscan
IPR001005 all species →	Domain	SANT/Myb domain	Interproscan
IPR021281 all species →	Family	Small nuclear RNA activating complex subunit 2	Interproscan
IPR009057 all species →	Homologous_superfamily	Homeobox-like domain superfamily	Interproscan
IPR018379 all species →	Domain	BEN domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15132 all species →	SNRNA-ACTIVATING PROTEIN COMPLEX SUBUNIT 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0009301 all species →	Biological Process	snRNA transcription	Interproscan
GO:0016251 all species →	Molecular Function	RNA polymerase II general transcription initiation factor activity	Interproscan
GO:0016604 all species →	Cellular Component	nuclear body	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	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
K08773	RALBP1; RalA-binding protein 1	-	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_018561-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

84TPM > 0

7Conditions

1,529.5Max TPM

495.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
holobiont · low.pH_high.temp	20	19	451.82	921.38
holobiont · low.pH Control.temp	20	20	648.63	1,529.50
holobiont · control.pH_high.temp	20	20	489.34	1,123.63
holobiont · control.pH Control.temp	19	19	540.75	1,198.13
Whole organism	4	4	14.16	15.43
unannotated	1	1	4.62	4.62
live coral tissue/skeleton	1	1	12.84	12.84

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR22214414	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	921.38
SRR22214409	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	718.32
SRR22214413	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	690.65
SRR22214421	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	661.72
SRR22214415	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	629.30
SRR22214405	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	593.26
SRR22214402	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	564.92
SRR22214410	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	500.35
SRR22214404	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	485.02
SRR22214419	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	465.46
SRR22214407	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	423.10
SRR22214423	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	409.32
SRR22214417	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	385.37
SRR22214418	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	367.97
SRR22214412	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	331.66
SRR22214406	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	281.78
SRR22214403	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	235.10
SRR22214408	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	222.58
SRR22214420	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	149.14
SRR22214416	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214432	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	1,529.50
SRR22214440	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	1,266.25
SRR22214435	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	1,163.30
SRR22214438	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	944.57
SRR22214424	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	706.02
SRR22214443	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	655.84
SRR22214445	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	595.72
SRR22214430	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	592.25
SRR22214437	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	579.32
SRR22214428	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	562.11
SRR22214426	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	549.71
SRR22214439	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	532.70
SRR22214429	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	517.18
SRR22214434	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	459.69
SRR22214425	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	433.23
SRR22214427	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	431.94
SRR22214431	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	400.31
SRR22214441	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	395.59
SRR22214436	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	372.98
SRR22214442	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	284.32
SRR22214457	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	1,123.63
SRR22214449	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	884.19
SRR22214448	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	735.43
SRR22214446	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	644.78
SRR22214452	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	634.65
SRR22214451	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	630.54
SRR22214454	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	626.94
SRR22214456	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	542.29
SRR22214450	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	469.05
SRR22214467	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	433.16
SRR22214465	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	372.46
SRR22214460	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	364.76
SRR22214462	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	347.05
SRR22214458	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	325.95
SRR22214463	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	322.41
SRR22214464	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	296.21
SRR22214459	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	293.85
SRR22214461	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	252.15
SRR22214453	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	247.14
SRR22214447	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	240.13
SRR22214546	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	1,198.13
SRR22214492	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	881.93
SRR22214470	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	815.65
SRR22214524	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	721.66
SRR22214444	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	695.98
SRR22214433	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	654.27
SRR22214455	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	648.92
SRR22214469	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	542.36
SRR22214422	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	533.58
SRR22214535	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	470.83
SRR22214468	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	435.45
SRR22214548	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	431.52
SRR22214481	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	427.15
SRR22214471	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	418.64
SRR22214547	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	398.29
SRR22214506	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	333.96
SRR22214400	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	281.10
SRR22214411	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	201.02
SRR22214466	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	183.84
SRR14295601	Whole organism	Whole organism	not recorded	not recorded	SRP315757	15.43
SRR14295604	Whole organism	Whole organism	not recorded	not recorded	SRP315757	15.42
SRR14295603	Whole organism	Whole organism	not recorded	not recorded	SRP315757	13.58
SRR14295600	Whole organism	Whole organism	not recorded	not recorded	SRP315757	12.22
ERR12861049	unannotated	not recorded	not recorded	not recorded	ERP159209	4.62
SRR12454619	live coral tissue/skeleton	live coral tissue/skeleton	not recorded	not recorded	SRP277390	12.84

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.