Gene detail

Detailed information of OS493_032444-T1 in Lophelia pertusa

Genomic Location: scaffold_241:345367...386776
NR annotation: KAJ7389286.1, Pre-mRNA-processing factor 6 [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

OS493_032444-T1

ATGTCGCTATTGAATAAGAAAAAGAAGTCTTTTATTGGAGTACCGGCACCTCTTGGCTATGTGCCAGGCCTTGGAAGAGGTGCTACTGGTTTTACGACTCGCTCAGATATCGGTCCTGCTAGGGTTTCTACAGATATAAGTGATGAGCGGCATGGAAAGCCAGGCTTTGCTACTGAAAAGAAACCACCAGAAGAAGAGGAAGAAGATTTGAATGAAACAAATTATGATGAGTTTGCAGGATACGGTGGAAGTTTATTCTCTAGTGGTCCTTATGAGAAAGATGACGAAGAAGCAGATTCTATTTATGATTCCATTGATCGCAGAATGGATGATAGAAGAAAAGAAAGAAGAGAAAAGCGGTTTAAAGAAGAGATAGAGCAGTACCGACAGGAGAGACCAAAGATCCAACAGCAGTTCTCCGATCTCAAGCGTAAGCTGGGTGATGTGTCTGAAGATCAATGGTTGAGTATTCCAGAGGTGGGAGACTACAGAAGCAAGAAACAACGGAATCCCAGGACAGAAAAATTCACCCCAGTGCCTGACAGTGTTTTGCACAGTGTACTTTTGAGTGGAGAGCAAGTGGCGTCACTTGATTCACGACAACAGAAATATGGAGGACTCCAAACTCCATTCCCTGGTGGAGTGACTCCTGGGGGCATGACATCAGGATTTTCGACGCCATCTGCAAATCTTGACCTGATCAAAATTGGAGAGGCCAGGAAATCCCTTGTTGGTGTTAAGTTGGACCAGGCATCTGATTCAGTGAGTGGTCAAACAGTGGTGGATCCTAAAGGATATCTCACTGATCTTCATAGTTTAACACCCTCATCAGGTGGAGATATTGGAGACATAAAGAAAGCACGACTTCTACTCAAGTCTGTTATCACTACTAACCCACAGCATGGACCTGGCTGGATAGCTGCTGCTCGTTTAGAAGAGGTGACAGGTCGCATGCAAGCCGCACGGAACACAATCATTAAAGGAACAGAGGTCTGTTCCAAGAATGAAGATGTCTGGCTGGAAGCTATCCGTTTGCAGCCCCCAGAGACAGCTAAATCAGTTTGTGCACAAGCAGTTGGTCAGCTGCCGCAGTCCGTCCGACTGTGGATCAAGGCTGCGGCACTGGAGGATGAGACTAAAGCAATGAAAAGAGTCTATAGAAAAGCTTTGGAACAGATTCCTAACTCTGTTAGGATTTGGAAAGCAGCGGTAGAGTTGGAAGGACCTGAAGATGCACAAATCATGTTGAGCAGGGCGGTAGAATGCTGTCCTACTAGCGTGGAGCTTTGGCTTGCCCTTGCACGATTGGAAACTTATGAAAATGCCAGAAAGGTGTTAAACAAAGCTCGTGAGAACATCCCAACTGACCGGCAGGTCTGGATTACAGCAGCTAAACTGGAAGAAGCCAATGATAACCTTCCCATGGTGGAGAAAATCATCGACAGAGCTGTAACGTCGTTAAAAGCCAATGGCGTAGAAATCAACAGAGATTTGTGGAGTAAAGATGCAGAGGAGAGTGAGAAAGCTGGCAGTGTTGTCACTTGTCGCGCCATTATTGATATCGTGATAGGTATTGGTGTTGAAGAGGAAGACAGAAAACACACCTGGATGGAAGATGCTAACAGTTGTATTGCTAACAATGCGTTTGAATGTGCAAGAGCTATCTATGCGCATGCTCTGTCGGTGTTTCCCAGTAAGAAGAGCGTCTGGCTGAGAGCAGCACACTTTGAAAAGAATCATGGGACAAGAGAGTCTTTAGAGGCCCTGCTACAGAATGCTGTCAAACATTGCCCAAAAGCAGAAGTCCTGTGGCTGATGGGCGCTAAGTCCAAGTGGATGGCTGGTGAGATCTTCCAAGCTCGTTCCATCTTGGCTCTGGCTTTTCAAGCCAATCCAAACAGCGAAGAGATTTGGCTAGCTGCTGTTAAACTGGAGAGTGAAAACAACGAAGATCAGAGAGCAAGGAAACTTCTGCAGCGAGCTCGACTCAACGCTTGTACGCCAAGGGTCATGATGAAGTCCATCAAGTTAGAGTGGGTGTTGAGAAATCTTTCTGAGGCGGAGAAGCTATTAGGCGAAGCTGTTCAAAGATATCCTGATTTTGCCAAGTTATGGATGATGAAGGGACAGATACACGAAGAATTAACTCACTTCGATGACGCAAGAGAATCCTACAAACAGGGGACGAAAAAGTGTCCTCGCTCCATTCCAATATGGCTGTTATTGGCCAGGCTTGAAGAAAGCTCAGGTCACACTACAAAAGCGAGGTCAGTTTTAGAACAAGCACGACAGAAGAATCCCAAGTGCGCAGAATTGTGGCTTGAAGCAGTTCGGATAGAAACCAGAGGAGGACGGAAAGAATTTGCTAGAACATTAATGGCTAAAGCCATGCAAGAATGTCCAGCCTCCGGTATTCTGTGGGCGGAGGCTATTTTTATGGAGAGCCGACCTCAGAGAAAAACAAAAAGCGTGGATGCACTCAAGCGATGCGAACATGACTCACACGTCCTGTTAGCAGTGGCCAGGTTATTCTGGAGTGAGCGAAAAATAAACAAAGCAAGAGAGTGGTTTAACAGGGCCGTCAAACTCGACCCAGACCTCGGCGACTCGTGGGCGTGTTTCTACAGATTTGAGCTACAGCATGGGACCGAGGCCCAACAAGAGAACGTTATGCAACGATGCGTGTTGGCCGAGCCTCATCACGGGGAGAACTGGTGCGCAGTATCCAAGGCTATCCCCAACTGGAGACTTCGGACCAAGGATATTATTCCATTGTGGCCAAGTCGTTGA

Transcript

OS493_032444-T1

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q91YR7	Pre-mRNA-processing factor 6 OS=Mus musculus OX=10090 GN=Prpf6 PE=1 SV=1
A1A5S1	Pre-mRNA-processing factor 6 OS=Rattus norvegicus OX=10116 GN=Prpf6 PE=1 SV=1
Q2KJJ0	Pre-mRNA-processing factor 6 OS=Bos taurus OX=9913 GN=PRPF6 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004674 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06424 all species →	PRP1_N	PRP1 splicing factor, N-terminal	Domain	Interproscan
PF13432 all species →	TPR_16	Tetratricopeptide repeat	Repeat	Interproscan
PF13428 all species →	TPR_14	Tetratricopeptide repeat	Repeat	Interproscan
PF13181 all species →	TPR_8	Tetratricopeptide repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan
IPR019734 all species →	Repeat	Tetratricopeptide repeat	Interproscan
IPR003107 all species →	Repeat	HAT (Half-A-TPR) repeat	Interproscan
IPR010491 all species →	Domain	PRP1 splicing factor, N-terminal	Interproscan
IPR045075 all species →	Family	Pre-mRNA-splicing factor Syf1-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11246 all species →	PRE-MRNA SPLICING FACTOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0006396 all species →	Biological Process	RNA processing	Interproscan
GO:0000398 all species →	Biological Process	mRNA splicing, via spliceosome	Interproscan
GO:0000244 all species →	Biological Process	spliceosomal tri-snRNP complex assembly	Interproscan
GO:0046540 all species →	Cellular Component	U4/U6 x U5 tri-snRNP complex	Interproscan
GO:0071013 all species →	Cellular Component	catalytic step 2 spliceosome	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
K12855	PRPF6, PRP6; pre-mRNA-processing factor 6	-	Spliceosome	ko03041	deepkoala

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

Expression pattern

Expression trend for OS493_032444-T1 global co-expression network