Gene detail

Detailed information of gene02421.t2 in Actinoscyphia liui

Genomic Location: chr1:36947342...36957865
NR annotation: XP_020915530.1, RNA-binding protein 39 [Exaiptasia diaphana]
Species Actinoscyphia liui · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

gene02421.t2

ATGCTAAATAAGATTGTGAAGTTTTGTTCGTTAACTCCGTATATTACATACTTTTTATCCAACTATTACTGCAGAACCACAACAGCACTCACCATGACTGAAGATTTCGATATCGAGGCTATGCTTGAGGCCCCTTACAAGAAAGAGACAACACCCCAGAATAACAAGAAGAGAGAAGACAAGAAACATTCAAGCTCAAGTGAAGACGATGGTTACTATGAAAAGAAGAAAGGGTACATAAACAATTTTAGAAGAAGAAAGAGAAGGAGCAGATCACGTAGTCCAAAGAGAAGAACTAAATCACGAAGTCCACGACGCAGGTCCTGTAGCCCAAAAAAGGGGACCAAAAGCAAATCCCGTAGTCCAAGACGGAAAAGCAGAAGTAGATCCTACAGCCCTAAGGCAAATCGTAAAAATTACAGACGCAAGCGTCCCAGTTATAGCAAGAGCAGAAGCCGTACACCACCGAGAAAACGACGACGCAGCCCAAGCAAGAGTAAGAGTAAAAGTCCTGTAAAAGTAGACGAGAGAAAGAACAGCAACAGTCCAAACCGCAGACCATTTGGCCTGACAGAAAGCCCAGAAATAAAAATTCCAGAGCCAGAGTCTGAGGAGTCTGCAATAGAAAGAGATCAGAGAACAGTATTCTGTATGCAGCTTGCAAGGAACATCAGACCAAGGGATTTGGAGGAGTTTTTCTCTAAAGTAGGACAGGTTTCAGATGTCCGTATCATATCAGACAGAAACTCCAGAAGGTCTAAAGGAATTGCCTATATTGAATTTACAGATAAATCAGCTGTTCCACTGGCTATTAATCTGTCTGGAAACAAACTTCTTGGAGCCCCAATCATGGTAATGCCTACACAATCAGAAAAGAACAGACTTGCTGCTGAAGCAGAAAGACTTAAACAGCCCATTGGACCCACAAGACTGTATGTTGGATCTTTACACTTTAACATCACAGAAGCAATGATCAAGGCTGTTTTTGAGCCATTCGGTATCGTGGATAGTGTGCAGCTTATTTATGACTCGGAGACTAATCGTTCTAAAGGATATGGATTTGTACAGTTCAGAGATGCTGAGGCTGCAAAGCGTGCTATGGAACAAATGAATGGCTTTGAACTTGCTGGAAGACCTCTAAAGGTTGGCTCTGTTACTGAAAGAGGGGATTCGTCTGCTTATTCTTTCCTTGATGATGAGGAGTATGAAAAAGGGGGAGTGGAACTAAATTCTACAGCAAGGGCTGCACTCATGGCGAAACTGTCCCAGGGGCATTCTGCTGGTCTAATAGTACCTGGTGCTCCTGCTGCTGCTACTGGTGTACAACAAGCTCTTGCATCAATTCCTCTCAATGTATCTATCCCTACTCCATGTTTTATGCTTACTAACATGTTTGACCCAACTAAGGAGAAGGACGAAGGCTGGGAAGAAGATATCCGTGATGATGTTCTTGATGAATGTACAAAATATGGTCCTGTTGTCCACATCCATGTTGACAAAGCCTCACCTCAGGGTATGGTGTATGTTAAATGTTTTACTCCAGACACTGCAGTCAAAGCTTCCAAAGCTCTCCATGGAAGATGGTTTGCTGGAAAACAAATCTTATCAGCACCTATCCCACTGTCTAATTACCATACGATGTTTCCTAATGCTATATCAGCTGCAAGGGCTTTACAGCCTTCGACTGTGTAATTCTCTCTAAATACGTTCTTTCTTGTAAATAGAACTCTTTGCTGCTAGTTTGTTGGAATATTATCGTAGTATTTGATAGAGCTAAATTTTAATGACTGAAAAGCTCTGTGTGATGTGCTGTGTCGCAGCATTTTGATTGGTCAAAAAAAAATTCTCATCCAATCAAAATGTAGAGACACCTCATGGCACGACACAGCACGACACAGCACGGCACTGAGTTTTTCATAGTCATGATATCCGCTCTATACTACATTTCTTATAGGATAAGATGTTCGATTTGATATACACATAGTTAGCATTGAACATTAAAGAAGCAGTCATCGCTTGGAAAAAAGGGAATCTTTATCATATTCATTAAGGCTTGGCCAAGGACTCTGTTGCATTGTGAAATGTAGCTGTTTTCAATAAAATGATTACACCTTTGATTGAACTGTA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5RC80	RNA-binding protein 39 OS=Pongo abelii OX=9601 GN=RBM39 PE=2 SV=1
Q14498	RNA-binding protein 39 OS=Homo sapiens OX=9606 GN=RBM39 PE=1 SV=2
Q8VH51	RNA-binding protein 39 OS=Mus musculus OX=10090 GN=Rbm39 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003797 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF15519 all species →	RBM39linker	linker between RRM2 and RRM3 domains in RBM39 protein	Domain	Interproscan
PF00076 all species →	RRM_1	RNA recognition motif	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012677 all species →	Homologous_superfamily	Nucleotide-binding alpha-beta plait domain superfamily	Interproscan
IPR000504 all species →	Domain	RNA recognition motif domain	Interproscan
IPR035979 all species →	Homologous_superfamily	RNA-binding domain superfamily	Interproscan
IPR006509 all species →	Family	Splicing factor, RBM39-like	Interproscan
IPR029123 all species →	Domain	Splicing factor RBM39, linker	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR48036 all species →	SPLICING FACTOR (PAD-1), PUTATIVE (AFU_ORTHOLOGUE AFUA_1G15810)-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006397 all species →	Biological Process	mRNA processing	Interproscan
GO:1990446 all species →	Molecular Function	U1 snRNP 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
K13091	RBM23_39; RNA-binding protein 23/39	-	Spliceosome	ko03041	deepkoala

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