Gene detail

Detailed information of pspe_0.1.m1.19934.m1 in Pachyseris speciosa

Genomic Location: Sc0000101:601485...623432
NR annotation: CAH3026288.1, unnamed protein product, partial [Porites evermanni]
Species Pachyseris speciosa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

pspe_0.1.m1.19934.m1

tggaatTTTGTATTCTTGGTATATCTGTGGCATGTCCTGTGGCACAGCTAACCGCCGCCTTGAGCCCGCGTAGCAAAAAGTTTGTAAGCGAGGCTGAACATTTCAACATGGCGACGTCAAAGAGCGCGAACACTTACAATCGACAAAACTGGGAAAATGCGGAATTTCCCATTCTTTGCCAAACATGCCTTGGAGACAACCCATATGTCAGAATGACAAGAGAGACTTATGGTAGAGAATGTAAGATTTGTGCCCGGCCATTTACAGTGTTCCGTTGGTGCCCTGGGGCACGAATGAGATTCAAGAAAACAGAAGTCTGCCAGACATGTTCAAAATTAAAGAATGTTTGCCAAACCTGCTTACTTGATCTAGACTATGGTTTACCGGTTCAAGTGAGGGACCATGCTCTTGGTTTGAAAGATGATGTTCCCAAATCTGATGTTAACAAAGAATATTATACTCAGAATGTGGAGAAAGACCTGGCCAACTCAGATGGAACCACGCCGGGTGGAACACTTGGTAAAGCCAATGCACCAAGTGATCTGCTGCTTAAACTTGCCAGAACCACTCCATACTATAAAAGGAACCGACCCCATATCTGTTCTTTCTGGGTCAAAGGAGAGTGCAAACGAGGCGATGAATGCCCTTACAGACATGACATGCCGACAGATCCAAATGACCCTTTAGCAGATCAGAACATAAAAGACAGATATTATGGAAGTAGCGATCCAGTGGCAGCGCGTCTTCTAAGCCAGGCTAAAACCATGCCCTCCCTGGAGCCCCCATCAGATAAGTCCATTACCACTCTATATGTCGGAGGGCTGGAAGGAAAGGTGGAGGAGGGAGATTTGAGGGACTATTTTTATCAATTTGGTGAATTGCGATCAATAACAATGGTACCAAGACAGAACTGTGCATTTGTCTGCTTTACATCGCGAGCAGCTGCAGAAACAGCGACAGAGCGCTCCTTCAACAAACTGATTCTTAAAGGAAGAAGGCTTAAAATCATGTGGGGCAAGTCCCAGGGGCAACAACCTGCCCCTGGAAAACAGGGAGGTACTCCCCTGGCTCCTGTACCAGGGCTACCAGGAGCtcttccaccaccaccaacTGAAGACAAAAGCCAAGCAAACTTCTTCAATCTTGGCACACCATCCTCAGCACCAGTATCAGCCCAACCTCCCATTCCACTCACCTTACCACCACCCCCAGGGCAGATCCCAGGCATGCCCCCTCCCCCATGGGACACCCCTTGCCTCTCCCACCTGGTGGATTTCCACCCCCTCCTCCATTTGGCCATCCACCTTTCAGACCTCCTCCAGTGCCATTTTATGGTGCCCCTCCTCCTCCCCGCATGCCTCCGCCTCCACGGCAAGTAATGCCACGTCCTCCTCCTGGTCCTCCGCCGATACACTATCCATCTCAAGACCCTCACAGACTGGGTGCAGGCAAAGTTGGAGAAGAAGGGCCTCGTCCATCTGCCCCTGCATCTGCTAGTTCCTAGACTGACATGTCAGAAGGCAATAATCAATACAATTTATAAgacgtttttgttttcatgttgcAAATAACCTTTGCTCTCCAATGATCTGATGTTCAAATCTTGCATAAAAGTGCCCTTTTGTAAAATACAAGGTGGCTGGGGGTGGGCCACTCTTTCACAAGACACTCATGGGTAGTTGCAATGGGGTCAGTGCTAATTGCAGAGTATCCATATTTGACACATTTTCCGGAGCAAGCTACATTATTGAAAACACCTTATAGCTTCAAAATATTAGCACTGCAATTTAATTGAGgcacaaaaaaaaacactgaacaTAATATTACTATGAATGCAAAACCAGTTTCTAAAAGGGTCTCATTATGCAGTGCTGGGAAACAACATTGCACAACCAAATTACTTGACTATCTGCCTAAAAAATGTCCAGTTGAATGTTATCCACAGATATTTTCTACAATGTTCAAACCACTATGAAGCTGGAATGGATAGTTTTTATTGTCTTGGGTCAGAAATGTGCATTCCCAAGGTGTAATGTCTTATTGGATTAAGaactttaatttattatttcaagcaaaaaaCTGCTATCACATAGTATGATTTTAAAAGCAAGTGCTTGCATTTcaagaaaatgttttcattaatttgtaGTTTTATCTGCAGGAAAATGCCACCACTTCGAAATCTTAGGATCTGTTTCATTTTACCTCCTCTCTCAATTACTGATTagaaaagaaattttttaaaaatactgTTGTAACCATTGTTActttgttaataaaaataatagccTTGTACAGAGTATTGCACATGTTTGCACCTTATACTCTACAAGAAGAACTATAATCCACTCCATGTTACTGTAAATTCTTAAAGCCATGAACTTTCAAATTCAAGTGTCATCTGCTTTCTCAACAACAGCCACTCTGCAGAATAACCAACCTGGGTAGCTGACGACTCTGAgtaagagattgggcaacagctttttattcgaTGCGACAGTAGCACAACATCAGAAATGGGCCTAAGTGGTAATCCAAAACCAATCAGAGTATGGTTACAATACTTGACTGTAGTACACATTCTTCCTGCAAATATTTCAACTAAGTTTTGTTCACAATCACAAATTTTATTTCATCTCAACATAATATTTTATATCAGGCATTTCTTTCTCAGGTCATTCCAAAACAGTATAATGTATATTTTCACATCCAATGAAGTTACAACCTCTGCCACTGACTCACTACAGTGGCTGTTTTCACACTAGTGACAATTGTATGACCTGCTGCACCAGAAAGGAGAAGTGATTGAAGGACATTGACAAACCAGTAGCATAGTTTAGAGCTTGATTTTATTCGCTTTAACTCTCCATTACTAAGAGTTTGTTAATCATCTTTTTTCATTTAACTTCTCCTTTGTTGGTCGTGCCTGTCCAATCACTCAAATTTAGTCCAAATGGTTAAGAACTAGTAACTAATGAATATGTCAGTGGTGATTGCAGTTATAATcatatgaacactacttaaccagtagtgaaaaataataaagtaTCTAGTTGTGTGTTTGTGCAAACATTTCCTCCAAACATCTACAACAAATTACATTGAACAGGTATTCAGGCCTGACCATGAACTGTTGGCAATAACTTATCAAGATCCCCACTTtgaattaagaaatattttATGAGAATAGATGCTATCACAAGTGTCACAACTGCTAATATTAAACAATTGGGCCTGAATGAGAAAGAAGCCAACATTTACACCCATATCAATAACTTTATCAATTTTGTTTGCAAGATTACACATTCTAATGTCATACATGGCCACACATGACAAGTTTGACCCCAAATTACGTCATTAATTTATAATAGAGTCTGTACAACATTCTTCATCCTGTCAATCATCTGCTGTGGTTGGTTTCTTTGGGTGGAGTGTTGTGTAGGTAATATGCTTTGCACAATGCCAACATGCCTGCATAAGTCGGCTGAATCCTGTGTCCTTGGGCt

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q6NZZ9	Pre-mRNA-splicing factor RBM22 OS=Danio rerio OX=7955 GN=rbm22 PE=2 SV=1
Q6P616	Pre-mRNA-splicing factor RBM22 OS=Xenopus tropicalis OX=8364 GN=rbm22 PE=2 SV=1
Q7ZXB5	Pre-mRNA-splicing factor RBM22 OS=Xenopus laevis OX=8355 GN=rbm22 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007063 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF21369 all species →	STL11_N	STL11, N-terminal	Domain	Interproscan
PF00642 all species →	zf-CCCH	Zinc finger C-x8-C-x5-C-x3-H type (and similar)	Family	Interproscan
PF00076 all species →	RRM_1	RNA recognition motif	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR039171 all species →	Family	Pre-mRNA-splicing factor Cwc2/Slt11	Interproscan
IPR048995 all species →	Domain	STL11/RBM22-like, N-terminal domain	Interproscan
IPR000571 all species →	Domain	Zinc finger, CCCH-type	Interproscan
IPR000504 all species →	Domain	RNA recognition motif domain	Interproscan
IPR035979 all species →	Homologous_superfamily	RNA-binding domain superfamily	Interproscan
IPR012677 all species →	Homologous_superfamily	Nucleotide-binding alpha-beta plait domain superfamily	Interproscan
IPR036855 all species →	Homologous_superfamily	Zinc finger, CCCH-type superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14089 all species →	PRE-MRNA-SPLICING FACTOR RBM22	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000974 all species →	Cellular Component	Prp19 complex	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0017070 all species →	Molecular Function	U6 snRNA binding	Interproscan
GO:0036002 all species →	Molecular Function	pre-mRNA binding	Interproscan
GO:0071006 all species →	Cellular Component	U2-type catalytic step 1 spliceosome	Interproscan
GO:0071007 all species →	Cellular Component	U2-type catalytic step 2 spliceosome	Interproscan
GO:0046872 all species →	Molecular Function	metal ion binding	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid 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
K12872	RBM22, SLT11; pre-mRNA-splicing factor RBM22/SLT11	-	Spliceosome	ko03041	deepkoala

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