Gene detail

Detailed information of scaffold28.g46.t1 in Aurelia aurita complex sp. Pacific

Genomic Location: scaffold28:677838...695312
NR annotation: no NCBI-NR hit recorded
Species abbreviation AAURI2 · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

scaffold28.g46.t1

cctttgtttctggcctagtattgctgctggatgctgatgacccgtctgcaaaggaacctctcgtctgcctcatgtaaatgcgagaagaataatgctgccccacacgtgagatacctttcaacctcaaccaaataaattcgccttgacaggactgcaagttgcccggaaagatgtcttctcaacaagctccagttgcaagcacaagtagctcgaccccaactctgacaacccacagccatgctcaagcaggccctgcagctgcagccgttttcctcagctctgcttcaagctcaagttcttccaagcgatctggtaaacggaaggtgaaacctaatccacccatattcagcaccttttcaaacacatttacagacaagaacaatgactttgtgtgcccagtgtgctttgatatgatcgatgaagcgtacatgacaaaatgtggccacagtttttgttatcaatgcatcgtgaacagtttagaagagagcaacagatgtccaaaatgcaactgtgtcattgatagaaaagatcaaatcttccctaatttcctattaaatgaattgatcttgaaatacagacaagggaatattatgccaaaaagaagaaaagctgaagcttctgctcattatgttgctgagttgaaagacatgatcgtagctgattctttggaattatctgatgtcaaatatctacttggtgcattgcggagaagaaaggaaggtcttgaagctgatggaaaagctgctcaactcgagatcctgaaagattttctacagcaagtcagaaagcataaacaagaccaagtggatcagcttgtcaaagaaatgaaatggttggatgaagatcttgaaagagtggggaaaaaaattacaagtcataacacggagtatcaaacgttatcgcttccacatgttgtaccaacaacgccgactggccctcctccacacagcctgtcaagttctagttttcccgtcgatgacgcaccttatgattgtcaagagggatttaatgctagtcgatgtgggacacaagcaatgatttcaacggcaacattggcagcaagaagaaaacgagttcatatgcattttgatgatttggaatcatgttatttcaatctgaggcacggaaggatcagctgcgagagaggcgaagatgtgctgggaacatttactgacaatctcttgaaattcactcggtacagtgaattcagaccactagcgacgcttagttatgccagtgacatctacaatggttcgagtattgtctcgagcatagaattcgatcgtgactgcgattattttgcgatagctggagttaccaagaaaattaaggtatttgaatacaaccaggtcgtcagagatgttgttgatattcattatccagttcatgaaatgacgtgcaattcaaaaattagttcaatagcttggagtcaataccacaaaggaatgcttgcaagcagtgattacgaagggacagtaacgctgtgggatgcatttgctggaactcatacaaggcttttccaggaacacgaaaaaagatgttggagcgttgatttcaatatggttgatccaaaattaatcgcttcaggatcagatgatgcaaaagtgaagctttgggcaacaaatatggagcattctgtatcaactttagaagctaaagcaaatgtttgctgtgttaaattcaatccagaaagtagatatcatttagcattcggatctgcagatcattgtgtacattattacgatttgaggaacaataagaaggctttagctgtcttcaaaggacatcggaaagctgtatcatatacaaaatttgtgtcggcaactgaagtcgtctccgcatctacagatagtcaactgaaattatgggacattacaaaacagcaatgtttgcgaactttcaaaggtcatacgaatgagaaaaactttgttggactagcgtcaaatggagactatattgcctgtggtagtgaaaacaattcgctgtatgtatattataaaggggtatcaaagcaagttctaaccttcaagttcgatacaataagaagcgtcctggaacgtgacaagaaagaggatgacgtcaatgaattcgtatctgcagtttgttggaagcccgattcaaatatcgtcgttgctgcaaatagccaaggatcgataaaggtgttggagctggtgtgaaatgtaaaagaaaaagatagttttaagattgaatattttggtcatacagtagtgcgtcctgtttgaggtttggctgttttgtttctgaattctgtagatatttaagtacttcgaatttattttgcgttaagattagctgataggaaaggatcgtccgcattgatcggttaaccttcagcataatgaaatctcataaatagcagcaagttgt

Transcript

scaffold28.g46.t1

CCTTTGTTTCTGGCCTAGTATTGCTGCTGGATGCTGATGACCCGTCTGCAAAGGAACCTCTCGTCTGCCTCATGTAAATGCGAGAAGAATAATGCTGCCCCACACGTGAGATACCTTTCAACCTCAACCAAATAAATTCGCCTTGACAGGACTGCAAGTTGCCCGGAAAGATGTCTTCTCAACAAGCTCCAGTTGCAAGCACAAGTAGCTCGACCCCAACTCTGACAACCCACAGCCATGCTCAAGCAGGCCCTGCAGCTGCAGCCGTTTTCCTCAGCTCTGCTTCAAGCTCAAGTTCTTCCAAGCGATCTGGTAAACGGAAGGTGAAACCTAATCCACCCATATTCAGCACCTTTTCAAACACATTTACAGACAAGAACAATGACTTTGTGTGCCCAGTGTGCTTTGATATGATCGATGAAGCGTACATGACAAAATGTGGCCACAGTTTTTGTTATCAATGCATCGTGAACAGTTTAGAAGAGAGCAACAGATGTCCAAAATGCAACTGTGTCATTGATAGAAAAGATCAAATCTTCCCTAATTTCCTATTAAATGAATTGATCTTGAAATACAGACAAGGGAATATTATGCCAAAAAGAAGAAAAGCTGAAGCTTCTGCTCATTATGTTGCTGAGTTGAAAGACATGATCGTAGCTGATTCTTTGGAATTATCTGATGTCAAATATCTACTTGGTGCATTGCGGAGAAGAAAGGAAGGTCTTGAAGCTGATGGAAAAGCTGCTCAACTCGAGATCCTGAAAGATTTTCTACAGCAAGTCAGAAAGCATAAACAAGACCAAGTGGATCAGCTTGTCAAAGAAATGAAATGGTTGGATGAAGATCTTGAAAGAGTGGGGAAAAAAATTACAAGTCATAACACGGAGTATCAAACGTTATCGCTTCCACATGTTGTACCAACAACGCCGACTGGCCCTCCTCCACACAGCCTGTCAAGTTCTAGTTTTCCCGTCGATGACGCACCTTATGATTGTCAAGAGGGATTTAATGCTAGTCGATGTGGGACACAAGCAATGATTTCAACGGCAACATTGGCAGCAAGAAGAAAACGAGTTCATATGCATTTTGATGATTTGGAATCATGTTATTTCAATCTGAGGCACGGAAGGATCAGCTGCGAGAGAGGCGAAGATGTGCTGGGAACATTTACTGACAATCTCTTGAAATTCACTCGGTACAGTGAATTCAGACCACTAGCGACGCTTAGTTATGCCAGTGACATCTACAATGGTTCGAGTATTGTCTCGAGCATAGAATTCGATCGTGACTGCGATTATTTTGCGATAGCTGGAGTTACCAAGAAAATTAAGGTATTTGAATACAACCAGGTCGTCAGAGATGTTGTTGATATTCATTATCCAGTTCATGAAATGACGTGCAATTCAAAAATTAGTTCAATAGCTTGGAGTCAATACCACAAAGGAATGCTTGCAAGCAGTGATTACGAAGGGACAGTAACGCTGTGGGATGCATTTGCTGGAACTCATACAAGGCTTTTCCAGGAACACGAAAAAAGATGTTGGAGCGTTGATTTCAATATGGTTGATCCAAAATTAATCGCTTCAGGATCAGATGATGCAAAAGTGAAGCTTTGGGCAACAAATATGGAGCATTCTGTATCAACTTTAGAAGCTAAAGCAAATGTTTGCTGTGTTAAATTCAATCCAGAAAGTAGATATCATTTAGCATTCGGATCTGCAGATCATTGTGTACATTATTACGATTTGAGGAACAATAAGAAGGCTTTAGCTGTCTTCAAAGGACATCGGAAAGCTGTATCATATACAAAATTTGTGTCGGCAACTGAAGTCGTCTCCGCATCTACAGATAGTCAACTGAAATTATGGGACATTACAAAACAGCAATGTTTGCGAACTTTCAAAGGTCATACGAATGAGAAAAACTTTGTTGGACTAGCGTCAAATGGAGACTATATTGCCTGTGGTAGTGAAAACAATTCGCTGTATGTATATTATAAAGGGGTATCAAAGCAAGTTCTAACCTTCAAGTTCGATACAATAAGAAGCGTCCTGGAACGTGACAAGAAAGAGGATGACGTCAATGAATTCGTATCTGCAGTTTGTTGGAAGCCCGATTCAAATATCGTCGTTGCTGCAAATAGCCAAGGATCGATAAAGGTGTTGGAGCTGGTGTGAAATGTAAAAGAAAAAGATAGTTTTAAGATTGAATATTTTGGTCATACAGTAGTGCGTCCTGTTTGAGGTTTGGCTGTTTTGTTTCTGAATTCTGTAGATATTTAAGTACTTCGAATTTATTTTGCGTTAAGATTAGCTGATAGGAAAGGATCGTCCGCATTGATCGGTTAACCTTCAGCATAATGAAATCTCATAAATAGCAGCAAGTTGT

Protein

Gene family

Family type	Membership / link
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|CDC20 · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 activity RING\|RING · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|DWD · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13923 all species →	zf-C3HC4_2	Zinc finger, C3HC4 type (RING finger)	Domain	Interproscan
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR020472 all species →	Repeat	G-protein beta WD-40 repeat	Interproscan
IPR001841 all species →	Domain	Zinc finger, RING-type	Interproscan
IPR019775 all species →	Conserved_site	WD40 repeat, conserved site	Interproscan
IPR042755 all species →	Family	E3 ubiquitin-protein ligase COP1	Interproscan
IPR017907 all species →	Conserved_site	Zinc finger, RING-type, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR44080 all species →	E3 UBIQUITIN-PROTEIN LIGASE COP1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0043161 all species →	Biological Process	proteasome-mediated ubiquitin-dependent protein catabolic process	Interproscan
GO:0061630 all species →	Molecular Function	ubiquitin protein ligase activity	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
K10143	RFWD2, COP1; E3 ubiquitin-protein ligase RFWD2	EC:2.3.2.27	Ubiquitin system	ko04121	deepkoala

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