Gene detail

Detailed information of evm.model.HiC_scaffold_301.2 in Chrysaora quinquecirrha

Genomic Location: HiC_scaffold_301:7529...10218
NR annotation: CAB3992363.1, Retrovirus-related Pol poly from transposon TNT 1-94 [Paramuricea clavata]
Species Chrysaora quinquecirrha · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

evm.model.HiC_scaffold_301.2

ATGGCGGCGTCAGAAGATCATGGCCTAAAAGTAGAAAAGCTAAATGGGGATAATTTCCACAACTGGAAATTCCAGATGAAAATGTTGCTGATAGGAAAAGACTTATGGGAGATCGTCACTGGAACAGACACTCTAGGAGAAGAAGCCTCAGCAGATGAAcgaagaaaattcaagaaaagggAGAACTTGGCTCTCGCGTCGATTTGTTTGGCGATAAatacaaatttgcaaatttatgtGCGTTCTGCCGAAACTGCAAAGGAAGCTTGGGAGAATCTccagaaacattttgaaaagaagTCGCTTTCACGCAAAATATTTTATAGACGGAAGCTGTATTCATCAAGGATGGATAAAGGTATGAATATGATTGAGCATATTAATAATATTAAAACTTTGTCCGAGCACCTCGAGGCTGTAGATGATGCTGTGGCAGAGAAAGACCTTGTCATAATTTTGATAAGCAGTTTGCCTGAACAGTACAATTATTTAATCACTGCCTTAGAGACTATAGCGGAGGAAAAGCTAACATGGGACTATGTTCGGGATCGGTTGATACATGAGTATGAGAAACTGCAGGCCGGAAGTGCAACTGCTGTCAgtaatcaatcaaatcaagacGCTTTGTTGATCAAACGGGAAACAgaagtgaaaaagaagacagATCAAAGGCATGTTAAATGTTTTTATTGCAAGAAAATTGGCCATTATGCAAGGGATTGCtttaagaagaagaaagacaaaATTTCTTCACATCAAGAATCTGCAAATACCTCAGAAATTGAAAaggctgattttgaaaattcagaaattgCATTGGTGGCATCAGGTGATAATTCAGAGAAGTGTGATTGGTGGATAGATTCAGAGAAAGGTGTTGAAGTTTTGTTTAAAGACAAACTGTgcactgttgttgttgataataAATCATACAGAATTGGTTGTAAAGATGGCAAGCTATATAAACTGAACTTGGATAAATCTACTGAGCAATCATCTTTCTTTGGAGCTGTGAATGAAGAAAATTCTATTTCAATGTGGCATTTTCGATATGGACACTTAGGGTATGACAATGTGAAATCATTGAGTGATAAGTCCTTAGTGAAAGGCTTAAATCTTAATACCAAGGAAAATTTCGATCGGAAATGTGAGGGTTGTCTTATGGGAAAGCAAAACAGGCAACCATTCTCCAAGGAAAGTCATCATAAATGCTCTAATCTGTTGGAGATCATACACAGTGATGTTTGTGGACCAATGAGCACAAATTCAGTGGGAGGGTCCCAGTATTTTGTTACATTTACTGATGACCATTCAAGATACACAAGAGTTTACTTCATGAAAAGTAAAAGTCAAGTACtagagaaattcaaagaatttgTTGAGCTTGTTGAAAATGAGACTGAAATGCGAATAAAAACATTGAGGTCTGACAATGGTGGAGAATACACCTCAGTtgaatttgaagaattttgcaagaaaaagggTATCAAAAGAGAGCTCACAATACCCTATTCACCTCAACAAAATGGCATTTCAGAAAGGCTCAATAGAACAATTATGGAATCAGTAAGGGCAATGTTATACCATGCAAATCTACCTCTATCATTTTGGGCTGAAGCAGTATCTACTGCTGTCTATTTGAGAAATAGATCACCAACATCTTCTCTCAAAAATGCTACTCCCTATGAATGTTGGTATAAACAGAAACCAGATGTGAGTTCTCTCAGAGTATTTGGCTGCAATGCATTTGTACACATTCCTGATCAGAAGAGGAATAAACtacagaagaaatcagaaaggtGCATTTTCGTTGGGTATTTGGAGAATAGTAAAGGCTACAAATTCTACAACCCAGAGAAGAAAACCATGCTTAGAAGCAGAGATGTGATATTTCTGGAAAATAGCTTTGATAGAAGTCAACCTCAAAAAGAAGCATATCAGAAAGATCTGTATGTTGACCTTCTTCCAgcaaatgatgatattgatggtgACACAAATGTACAACAAAATGTCCCTGAGCAACCAAACCCACCACCTAGAAGATCAGAGCGAGTAACTGCAGCACCTGATAGACTTGGGACAATAACTGGTGAATGGTGGAATCACATTGATTTACCAAATGCTTCTATTGCAATTGAAGATGAAGAACCCTTTAGTATTGAGGAAGCACTTAATGGTCCTGATGCAGAGAAATGGAAAGCTGCGACAGATAGTGAATATGAATCACTTTTGAAGAATAAAACATGGACTTTGGTCGACTTACCTGATGATAAAAATATCGTGGGATGTAAATGGATTTTCAAGAAGAAGCGTGACGCTGATGGCACTGTTAGCGATACAAGGCACGATTGGTGGCACAAGGTTTCTCACAGAAAGAAGGCCTGGACTATGAAGAAACTTTCTCTCCAGTGGCAAAATACAACTCCATACGGACTGTATTGGcgattgcaaatgaattcaATCTAG

Transcript

evm.model.HiC_scaffold_301.2

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P10978	Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Nicotiana tabacum OX=4097 PE=2 SV=1
P04146	Copia protein OS=Drosophila melanogaster OX=7227 GN=GIP PE=1 SV=3
Q12337	Transposon Ty2-GR1 Gag-Pol polyprotein OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) OX=559292 GN=TY2B-GR1 PE=5 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000038 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00098 all species →	zf-CCHC	Zinc knuckle	Domain	Interproscan
PF14223 all species →	Retrotran_gag_2	gag-polypeptide of LTR copia-type	Family	Interproscan
PF00665 all species →	rve	Integrase core domain	Domain	Interproscan
PF13976 all species →	gag_pre-integrs	GAG-pre-integrase domain	Domain	Interproscan
PF13961 all species →	DUF4219	Domain of unknown function (DUF4219)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001584 all species →	Domain	Integrase, catalytic core	Interproscan
IPR001878 all species →	Domain	Zinc finger, CCHC-type	Interproscan
IPR036875 all species →	Homologous_superfamily	Zinc finger, CCHC-type superfamily	Interproscan
IPR025724 all species →	Domain	GAG-pre-integrase domain	Interproscan
IPR012337 all species →	Homologous_superfamily	Ribonuclease H-like superfamily	Interproscan
IPR036397 all species →	Homologous_superfamily	Ribonuclease H superfamily	Interproscan
IPR025314 all species →	Domain	Domain of unknown function DUF4219	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR42648 all species →	TRANSPOSASE, PUTATIVE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0015074 all species →	Biological Process	DNA integration	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion 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
K20456	OSBP; oxysterol-binding protein 1	-	Membrane trafficking	ko04131	deepkoala

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