Gene detail

Detailed information of amic_s0088.g13.t2 in Acropora microphthalma

Genomic Location: sc0000088_pilon:210066...222366
NR annotation: XP_029203078.2, pre-mRNA-processing factor 39-like isoform X2 [Acropora millepora]
Species abbreviation AMICR · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

amic_s0088.g13.t2

ATGGCGGAAAGTGTGGAAAACGGTGTGAGTCAAGAAGAATCCAACGAATATCCGGCCCATCCTGAAACAGTGAAAGAAAGTGGAAACGTAGCTTTTGGAGGTGGCGTGGACGCAGAAATGGCCGAGGAAAAACAAAATGGAGAGGCGTCGGAAGAGCGAGAAAGCTCCACCGAAGCTTCTGCTAGTGAAGAAGTTGTGAATGAACAAGAACTGAAATACTGGAAAGCCGTTAAAGAAAATCCGGCGGACTTCACAAGTTGGACATATCTCTTGCAATTTGTTGAACAAGAGAATAAGCTGTCTTCAGCAAGACAAGCTTTTGAAGCTTTTTTCAAGCGATATCCTTATTGCTATGGATATTGGAAAAAATTTGCTGATATGGAGAGGAAAAATGGAAACATTGATAAAGCTCAGGAGGTGTTTGAAGGTGCCATCTCTGCCATTCCTCTTAGTGTTGATTTATGGGTGCACTATCTCAACTTTGCTTCTCAGTCAACCAAAGGTCAGATTGATGGCCCAGAACTGATGCGAAGCTTATTTGAGCGAGCAGTGTCTACGGCTGGCGAAGAGTTTCGGGCGGACAAGCTGTGGGATGCTTATATCGAGTGGGAGAAAAGCCAGGGTCAGTTGCAAAGAGTGACAGCATTGTATGACAGGGTCTTCCAGGTCCCAACCCAAAACTACAGCCAGCATTTTGAAAAGTTTAAGCAACACATCAACTCTAACCCCATAGCTGCTGTGCTCTGTACAGAAGAGTTGCTGAAGCTCAGAGCCGAAGTAGCAGCTGCTCCCCCTGGCTTAACCTCTGCAGATGCTGAGCCTCTGATTAGTGTTGCCCCCGCCTCAACAAACCCACCTGGAAGTGATGATGCTGATGAAGTTGCCCCTGGTACGGAGACTGCTCCTGGAACAGAAAGTTCAGTCACCGCCCAGGATGATGCAGAGACAATTGCTATTCGTGAGAAAGTGATCGCAGCAAGGCAAGTAGTGTACAGTGCTTTGGAAGACGAGGTACGCAAACGATGGACATTCGAAGAATCTATAAAGAGGCCTTATTTTCATGTCAAGCCTTTGGAGCGTGTGCAGCTGAAAAACTGGAGAGAATACTTAGACTTTGAATTAAGTAATGGTGACCACAAAAGGGTAGTGATACTCTTTGAGCGCTGTGTCATTGCTTGTGCATTGTATGAGGACTTCTGGCAACGATTTGCAAGCTACATGGAGGTGCATAGTGTTGAAAAGTGCCGGCATGTCTATGAAAGAGCCTGCACAATACATCTGCCAAGAAAACCCTCCATTCATTTGGCCTGGGCTGCATTTGAGGAAGAGCAAGGAAATGCGGGCAAAGCATCGGAGATCCTGGCAGAGTTAGACAAAGGTGTTCCTGGCATCATTATGGTGAAACTGAAGAGAGTAAATCTGGAGAGGCGAAGAAAAAACTTTGACGTTGTGTCTTCTCTGTACGAAGAGTCCATGAATGAGACCAGTGATCAAGAGCTTGCCACATTTTTTGCTATTAGATACTCTAGATTCCTAACCAAGATCATGGGGAATATTGACAAGGCTCGTGAAGTATTGAAAGGGGCACTTGAAAAGGATAAGGGTAACAAGAGGTTATACCTTCAGTTGTTGGACTTGGAACTTAGTATTTATCCAGTGAGTGAAGACAGGGTGGAAGAAGTGTTTGACTTAGTCAAGGACAGTGAATTGGACACAGAGGTCAAGCAAGGATTCTCTCAAAGGAGAGTTGAGTTTCTAGAAGATTTCAGTGGCAACATAGCAAAAATAATGGCTGCTCAAGAGAACCATACCAAGTTATACAAAGGAAAGTCAGCTTTGGTGCCCCTGGCGGGTAGGAAGAGGTCACAAGATGGAGAAAGCTCTGATAACAAGGCTAAGGTTGCAAAAAGTGAAGAAGTAGCAGCTGATAGCAGCCAGCAGGTTGCAAGTGCGGCCATAACAGGGGCTGAGGCGTACGATACATCTTACTCAACAGCAGCTGCAGCCTACTCAGCCAGTCTTTCAGCTTACAGCTATGCAGCCCCTTCACAGAGCCAATGGGCTGCCTACTCAGCCTATTCTGCTGCACATCCTAATGCCTACAATAATTACAACCAATGGTACCAACAGTATGGTGCAGCATATGGACATGTTCACCAACAGTAG

Transcript

amic_s0088.g13.t2

ACGATGAATCTATCCATAATGGCGGAAAGTGTGGAAAACGGTGTGAGTCAAGAAGAATCCAACGAATATCCGGCCCATCCTGAAACAGTGAAAGAAAGTGGAAACGTAGCTTTTGGAGGTGGCGTGGACGCAGAAATGGCCGAGGAAAAACAAAATGGAGAGGCGTCGGAAGAGCGAGAAAGCTCCACCGAAGCTTCTGCTAGTGAAGAAGTTGTGAATGAACAAGAACTGAAATACTGGAAAGCCGTTAAAGAAAATCCGGCGGACTTCACAAGTTGGACATATCTCTTGCAATTTGTTGAACAAGAGAATAAGCTGTCTTCAGCAAGACAAGCTTTTGAAGCTTTTTTCAAGCGATATCCTTATTGCTATGGATATTGGAAAAAATTTGCTGATATGGAGAGGAAAAATGGAAACATTGATAAAGCTCAGGAGGTGTTTGAAGGTGCCATCTCTGCCATTCCTCTTAGTGTTGATTTATGGGTGCACTATCTCAACTTTGCTTCTCAGTCAACCAAAGGTCAGATTGATGGCCCAGAACTGATGCGAAGCTTATTTGAGCGAGCAGTGTCTACGGCTGGCGAAGAGTTTCGGGCGGACAAGCTGTGGGATGCTTATATCGAGTGGGAGAAAAGCCAGGGTCAGTTGCAAAGAGTGACAGCATTGTATGACAGGGTCTTCCAGGTCCCAACCCAAAACTACAGCCAGCATTTTGAAAAGTTTAAGCAACACATCAACTCTAACCCCATAGCTGCTGTGCTCTGTACAGAAGAGTTGCTGAAGCTCAGAGCCGAAGTAGCAGCTGCTCCCCCTGGCTTAACCTCTGCAGATGCTGAGCCTCTGATTAGTGTTGCCCCCGCCTCAACAAACCCACCTGGAAGTGATGATGCTGATGAAGTTGCCCCTGGTACGGAGACTGCTCCTGGAACAGAAAGTTCAGTCACCGCCCAGGATGATGCAGAGACAATTGCTATTCGTGAGAAAGTGATCGCAGCAAGGCAAGTAGTGTACAGTGCTTTGGAAGACGAGGTACGCAAACGATGGACATTCGAAGAATCTATAAAGAGGCCTTATTTTCATGTCAAGCCTTTGGAGCGTGTGCAGCTGAAAAACTGGAGAGAATACTTAGACTTTGAATTAAGTAATGGTGACCACAAAAGGGTAGTGATACTCTTTGAGCGCTGTGTCATTGCTTGTGCATTGTATGAGGACTTCTGGCAACGATTTGCAAGCTACATGGAGGTGCATAGTGTTGAAAAGTGCCGGCATGTCTATGAAAGAGCCTGCACAATACATCTGCCAAGAAAACCCTCCATTCATTTGGCCTGGGCTGCATTTGAGGAAGAGCAAGGAAATGCGGGCAAAGCATCGGAGATCCTGGCAGAGTTAGACAAAGGTGTTCCTGGCATCATTATGGTGAAACTGAAGAGAGTAAATCTGGAGAGGCGAAGAAAAAACTTTGACGTTGTGTCTTCTCTGTACGAAGAGTCCATGAATGAGACCAGTGATCAAGAGCTTGCCACATTTTTTGCTATTAGATACTCTAGATTCCTAACCAAGATCATGGGGAATATTGACAAGGCTCGTGAAGTATTGAAAGGGGCACTTGAAAAGGATAAGGGTAACAAGAGGTTATACCTTCAGTTGTTGGACTTGGAACTTAGTATTTATCCAGTGAGTGAAGACAGGGTGGAAGAAGTGTTTGACTTAGTCAAGGACAGTGAATTGGACACAGAGGTCAAGCAAGGATTCTCTCAAAGGAGAGTTGAGTTTCTAGAAGATTTCAGTGGCAACATAGCAAAAATAATGGCTGCTCAAGAGAACCATACCAAGTTATACAAAGGAAAGTCAGCTTTGGTGCCCCTGGCGGGTAGGAAGAGGTCACAAGATGGAGAAAGCTCTGATAACAAGGCTAAGGTTGCAAAAAGTGAAGAAGTAGCAGCTGATAGCAGCCAGCAGGTTGCAAGTGCGGCCATAACAGGGGCTGAGGCGTACGATACATCTTACTCAACAGCAGCTGCAGCCTACTCAGCCAGTCTTTCAGCTTACAGCTATGCAGCCCCTTCACAGAGCCAATGGGCTGCCTACTCAGCCTATTCTGCTGCACATCCTAATGCCTACAATAATTACAACCAATGGTACCAACAGTATGGTGCAGCATATGGACATGTTCACCAACAGTAGAGAGGCTCATAGGATGGAGCAAAGATAAGAACAACAACAACAGCTACAGACAGGCATGTTCTATTGGTCTCAGGGAACCATTGTTTGAAAGTGGTGCAGAAGAAGTGATGGTCTTCCATCAGATTTCTTATAAGTGGACTTAACACTGGCTTGAGGAATGGATTTTGAGTGCAGTACCCCATTAACACTGGAAAGTTGGGTCACTTCGTGATTTCATTGTACCTGTCATTCTGTCAGCTTTAGTGATACGGAACTTAATGTAGCTTAAACCTTCAATCTGTGGATTGGTTAAGCAGTTGCAGATGTACATGTAGGTGACCGAGCTAATTTTGTTAATATGTGTATCATCAATTACAGTTAAAGCGAAAGTGTTTGGTATCAGTGTTTTCTTGTCAACACACACCTATAATAAATTATTGTGCTGGACAAAAGTCACCAGTTTTTTGGGGTAGAGTTTTATTGTGGAAAGAAAGTTGTCTCACCTTTTAAAGTTCACACTTAAAAAAAAAGTATGGGCTTCGTGAAATATATTGTCACCCTGCTATGACATTGTTATCATAAAAGATGTTTTTTAATGTTCTGCTTTAATAAAGTGTTCTTTCACCATTTCAATGTTGCAGATTAATTTTTTCGACTTATTATTGGTCTTCTATCAATAGCCAAAAAACATTACACAGACTGCTTGATTAGTAGCAAAAGTATTGTAATCCTCTTTGACCAAGAGAAGTCTAAAAGATTTATAGACAACTATGTCAACACACATACTGTAAATACAGACCATAATACGTTTCTTATTATGGTTATTGTGGATTTTAAACTTTCAGTTGCCTGAAAACATCTTTCCTATTTCAACATCTCAAATTCAAAAATAAATTGACCTTTCTTATTGATGAATGCATAAAAACATGGACTAACATGTATAGAAAAAATCGATTTAATTAAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q86UA1	Pre-mRNA-processing factor 39 OS=Homo sapiens OX=9606 GN=PRPF39 PE=1 SV=3
Q8K2Z2	Pre-mRNA-processing factor 39 OS=Mus musculus OX=10090 GN=Prpf39 PE=1 SV=3
Q4KLU2	Pre-mRNA-processing factor 39 OS=Xenopus laevis OX=8355 GN=prpf39 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003066 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05843 all species →	Suf	Suppressor of forked protein (Suf)	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan
IPR008847 all species →	Domain	Suppressor of forked	Interproscan
IPR003107 all species →	Repeat	HAT (Half-A-TPR) repeat	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR17204 all species →	PRE-MRNA PROCESSING PROTEIN PRP39-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000243 all species →	Cellular Component	commitment complex	Interproscan
GO:0000395 all species →	Biological Process	mRNA 5'-splice site recognition	Interproscan
GO:0005685 all species →	Cellular Component	U1 snRNP	Interproscan
GO:0030627 all species →	Molecular Function	pre-mRNA 5'-splice site binding	Interproscan
GO:0071004 all species →	Cellular Component	U2-type prespliceosome	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006396 all species →	Biological Process	RNA processing	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
K13217	PRPF39, PRP39; pre-mRNA-processing factor 39	-	Spliceosome	ko03041	deepkoala

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