Gene detail

Detailed information of evm.model.Ap8.2524 in Astrangia poculata

Genomic Location: Ap8:27565499...27578080
NR annotation: XP_020620228.1, synaptic functional regulator FMR1-like isoform X1 [Orbicella faveolata]
Species abbreviation APOCU · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

evm.model.Ap8.2524

atggcgtcaaaacgtttcgcgctcagattgcgcaatttgttgatatcccagactgcctctgggacagcagagcaagttgagcaagaaaacatggaggatttgtcggtagaagtgtgcggtaaaaatggggcttattacaagggttatgtgaggaatattcaccaagatcaagtcacgattgcacttcaacacgaattgaataactgcaggagggtaccttacgaagaggttcgtcttcctccgtctacaaaccaaagatgtgatttatacgtggacgatgaaattgaggtgttctcgagagatgatgacggcgaaccttgtgcctggtggccggcaagagttgttcataaaaagggagagtactatgttattcagtatactggatgggatgcaacgtttaatgagattgttccaagagaaaggattcgtccagcaagtcgcaatggaccaatttccaggaatatgtaccacaaagtcatgattgatgtgccacaagatttgcgacaaccttgcaaagatgaagagacacacagagagttcaagaaacagtgtggagcatcctgtgtttattataacgatgagctagctgtgcttgttgttttgtcacgttcagaacgtcctgtaaagtgtgctgccatgctcagtgagatccattttcgaagtctaagaacaaagatgctgcttcagtcctggacagatgagacagcaagacaacttgagaatgcaaagaaacagttgggcgtggtcgagatgctgacgttaccagatcatctgatgggtcttgccattggtgcacaaggcgccaatatccaacaagccagaagactgccaggaatcaggtcgatcgaagtcgatgaggaaaactgcactttccacatttgcggagatggtgaagaattagtaaaagaagccagaaagttgctggaatttgcagaagaaactgtttatgtaccgagaccgcttgttggtaaagttataggtaaaagtggtcgtataatccaggacattgtggatcgatcaggtgttacccgtgttaagattgagccaccagaagaaagatcgtctatggatgaaaaaactgctaagaaagaagtttccttcctgtttgtcggaacaaaagaatgtattgctaacgctcgaatgatgttggactaccatttgtcgcatcttaaggatgtagagcagatgaaaagagacaaagaaagtcttgaccaacaactccgaagtatgggcatcaacccgccccaaggccccgcgtacatacccacaccggctgagatgcgacctgggccgagtctttcatttattggacaggacaacaacaacatgttaagcatgcgagacaggtcacttactaccgagagtttcggcggggacttgagcgaagggatgtctgttagtacgaaggacggaccaaggacaaagccgaccatacgaataagatcgagcagtgaatccgaagcccccgagaacaaaacgaacacacaacaatcctcaaagaattctggaaaccgtcgagcgtctacaccaacttcagaactgaaaggaatcgtggaggaggagactgaggatagtgagcatgcgaggagtaagactggggcggctgaaagtgaaactaacgacaaagaagaggtcgtaacatcctcctctccaccaaaagaaggaaaacccaggagaccttcgccttggttttctggaggcaaccgacgaacggacagcgaagggaaagatgacaaaagaagcgaagggaaccgtaaaaacaacgaccacagtgactcaagaacaaaccaaggcaacggaaataaacagcacggcagacaggaccaaagaccgcgaaccggaagcaagaattcacaacaaaagcaacagcctcaacaaggatacaggccccgaggaaacagcggcaaccagttccggccgagtagcggaagtctatcagcgaactggagagaccggtcccaggcccaatccgaggcgtctaccaaggacaaagcgaaggaggctgaggcgaggaaaagcagtgacaagagcacggaacagaaggtttctagagaagaggaagagaaagaagtgaaggccgaagagaagacgagggagaatggcgaaacaaagagcgcggatgagaaaccgagcgggcctgtgaccgatgaaaagcctgccgatacaaacgcggtgaaaacgaagagtacggagactaaagaggaatctgtaaaagaaaattga

Transcript

evm.model.Ap8.2524

ATGGCGTCAAAACGTTTCGCGCTCAGATTGCGCAATTTGTTGATATCCCAGACTGCCTCTGGGACAGCAGAGCAAGTTGAGCAAGAAAACATGGAGGATTTGTCGGTAGAAGTGTGCGGTAAAAATGGGGCTTATTACAAGGGTTATGTGAGGAATATTCACCAAGATCAAGTCACGATTGCACTTCAACACGAATTGAATAACTGCAGGAGGGTACCTTACGAAGAGGTTCGTCTTCCTCCGTCTACAAACCAAAGATGTGATTTATACGTGGACGATGAAATTGAGGTGTTCTCGAGAGATGATGACGGCGAACCTTGTGCCTGGTGGCCGGCAAGAGTTGTTCATAAAAAGGGAGAGTACTATGTTATTCAGTATACTGGATGGGATGCAACGTTTAATGAGATTGTTCCAAGAGAAAGGATTCGTCCAGCAAGTCGCAATGGACCAATTTCCAGGAATATGTACCACAAAGTCATGATTGATGTGCCACAAGATTTGCGACAACCTTGCAAAGATGAAGAGACACACAGAGAGTTCAAGAAACAGTGTGGAGCATCCTGTGTTTATTATAACGATGAGCTAGCTGTGCTTGTTGTTTTGTCACGTTCAGAACGTCCTGTAAAGTGTGCTGCCATGCTCAGTGAGATCCATTTTCGAAGTCTAAGAACAAAGATGCTGCTTCAGTCCTGGACAGATGAGACAGCAAGACAACTTGAGAATGCAAAGAAACAGTTGGGCGTGGTCGAGATGCTGACGTTACCAGATCATCTGATGGGTCTTGCCATTGGTGCACAAGGCGCCAATATCCAACAAGCCAGAAGACTGCCAGGAATCAGGTCGATCGAAGTCGATGAGGAAAACTGCACTTTCCACATTTGCGGAGATGGTGAAGAATTAGTAAAAGAAGCCAGAAAGTTGCTGGAATTTGCAGAAGAAACTGTTTATGTACCGAGACCGCTTGTTGGTAAAGTTATAGGTAAAAGTGGTCGTATAATCCAGGACATTGTGGATCGATCAGGTGTTACCCGTGTTAAGATTGAGCCACCAGAAGAAAGATCGTCTATGGATGAAAAAACTGCTAAGAAAGAAGTTTCCTTCCTGTTTGTCGGAACAAAAGAATGTATTGCTAACGCTCGAATGATGTTGGACTACCATTTGTCGCATCTTAAGGATGTAGAGCAGATGAAAAGAGACAAAGAAAGTCTTGACCAACAACTCCGAAGTATGGGCATCAACCCGCCCCAAGGCCCCGCGTACATACCCACACCGGCTGAGATGCGACCTGGGCCGAGTCTTTCATTTATTGGACAGGACAACAACAACATGTTAAGCATGCGAGACAGGTCACTTACTACCGAGAGTTTCGGCGGGGACTTGAGCGAAGGGATGTCTGTTAGTACGAAGGACGGACCAAGGACAAAGCCGACCATACGAATAAGATCGAGCAGTGAATCCGAAGCCCCCGAGAACAAAACGAACACACAACAATCCTCAAAGAATTCTGGAAACCGTCGAGCGTCTACACCAACTTCAGAACTGAAAGGAATCGTGGAGGAGGAGACTGAGGATAGTGAGCATGCGAGGAGTAAGACTGGGGCGGCTGAAAGTGAAACTAACGACAAAGAAGAGGTCGTAACATCCTCCTCTCCACCAAAAGAAGGAAAACCCAGGAGACCTTCGCCTTGGTTTTCTGGAGGCAACCGACGAACGGACAGCGAAGGGAAAGATGACAAAAGAAGCGAAGGGAACCGTAAAAACAACGACCACAGTGACTCAAGAACAAACCAAGGCAACGGAAATAAACAGCACGGCAGACAGGACCAAAGACCGCGAACCGGAAGCAAGAATTCACAACAAAAGCAACAGCCTCAACAAGGATACAGGCCCCGAGGAAACAGCGGCAACCAGTTCCGGCCGAGTAGCGGAAGTCTATCAGCGAACTGGAGAGACCGGTCCCAGGCCCAATCCGAGGCGTCTACCAAGGACAAAGCGAAGGAGGCTGAGGCGAGGAAAAGCAGTGACAAGAGCACGGAACAGAAGGTTTCTAGAGAAGAGGAAGAGAAAGAAGTGAAGGCCGAAGAGAAGACGAGGGAGAATGGCGAAACAAAGAGCGCGGATGAGAAACCGAGCGGGCCTGTGACCGATGAAAAGCCTGCCGATACAAACGCGGTGAAAACGAAGAGTACGGAGACTAAAGAGGAATCTGTAAAAGAAAATTGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q6GLC9	Fragile X messenger ribonucleoprotein 1 homolog OS=Xenopus tropicalis OX=8364 GN=fmr1 PE=2 SV=1
P51113	Fragile X messenger ribonucleoprotein 1 homolog A OS=Xenopus laevis OX=8355 GN=fmr1-a PE=1 SV=1
Q2KHP9	Fragile X messenger ribonucleoprotein 1 homolog B OS=Xenopus laevis OX=8355 GN=fmr1-b PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006499 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF18336 all species →	Tudor_FRX1	Fragile X messenger ribonucleoprotein 1, Tudor domain	Domain	Interproscan
PF17904 all species →	KH_9	FMRP KH0 domain	Domain	Interproscan
PF05641 all species →	Agenet	Agenet domain	Domain	Interproscan
PF00013 all species →	KH_1	KH domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR041560 all species →	Domain	FMR1, tudor domain	Interproscan
IPR004087 all species →	Domain	K Homology domain	Interproscan
IPR040472 all species →	Domain	Synaptic functional regulator FMRP, KH0 domain	Interproscan
IPR036612 all species →	Homologous_superfamily	K Homology domain, type 1 superfamily	Interproscan
IPR040148 all species →	Family	Fragile X messenger ribonucleoprotein 1	Interproscan
IPR008395 all species →	Domain	Agenet-like domain	Interproscan
IPR004088 all species →	Domain	K Homology domain, type 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10603 all species →	FRAGILE X MENTAL RETARDATION SYNDROME-RELATED PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
GO:0003730 all species →	Molecular Function	mRNA 3'-UTR binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005844 all species →	Cellular Component	obsolete polysome	Interproscan
GO:0006417 all species →	Biological Process	regulation of translation	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0017148 all species →	Biological Process	negative regulation of translation	Interproscan
GO:0036464 all species →	Cellular Component	cytoplasmic ribonucleoprotein granule	Interproscan
GO:0042803 all species →	Molecular Function	protein homodimerization activity	Interproscan
GO:0043488 all species →	Biological Process	regulation of mRNA stability	Interproscan
GO:0045182 all species →	Molecular Function	translation regulator activity	Interproscan
GO:0045727 all species →	Biological Process	positive regulation of translation	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
K15516	FMR; fragile X mental retardation protein	-	Messenger RNA biogenesis	ko03019	deepkoala

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