Gene detail

Detailed information of evm.model.HiC_scaffold_3.43 in Chrysaora quinquecirrha

Genomic Location: HiC_scaffold_3:590197...594425
NR annotation: GFX67243.1, retrovirus-related Pol polyprotein from transposon 412 [Trichonephila clavipes]
Species Chrysaora quinquecirrha · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

evm.model.HiC_scaffold_3.43

ATGCCGAGGATACCTACAATACAAAGATTCAGAGGAGATAAGGAAACCAGTTTTGAACTTTGGTGTCTTCAATTCGAAGCCCAACTTAAGGCACTTGGAGTAGAAGCTGAGAAGCAGAAAGATGTATTAATATGCTGCACCGAAGGGAGTGCATTTGAATTCATCTCGCGTCAATTAATAGATAATCCTGAAATAACATATGACCAACTAAAGGCAGCGATAAAACACGAATTTTGCGGCGAAGAATATAAAAGAAATCTTCAAACGAAGCTGAGAAGCCTAAAATTCAAAAAAGGGGCAAAGATAACAACGTTTGTTCAAGAACTAAGAAATATTGTGCGAGAACTTTATGGAGTCACAGACAAGGATACCGTGGAGGCCATTGCCACGCAGCATGTCTTGTCAACGCTGGATGATTCCTTGCGGAAGGAAGTTCATATCTTGCAACTTTCAGGCAATGCcaaattggaaaatttcttggagcTTATCGAAAGCAAGCTTGAGGGAAACCCTCTTTTAGTGAATTCTACATCTTCATGTCCAGTACCCGAGCCTCCAGGAGCTATTGCAGCTGCATCAGCAAGTGGGAACCTTGAAAACCGGTTAGGGAAATTAGAAAATATGATGTCACAATTGGTTCAAGAATTGGGGTCTTCAGAAAGAAAACCTGTTTGCGACCATTGCAAGAAAGAGGGACATACCAAATCAAGATGTTTTAGATTGAAAACCTGTCATAATTGTAACCAACAAGGACATATTCAGAGGTATTGTACACAGCCTGCAAGAGGGGCCAACCAAAGTAGCCAAAGACCCCCAAATTCGCAAACATCTGCAATGTCTGGAAAGCTAGATGAGTTAATACCTGGAAAACGCTtaataatgaaaattagaatTGGTTTGAAAGAGATTGAGTTTCTTTATGATCCAGGAAGTCAATTTACAATTATCCCACGGAAAATTTATGAAGAACTATTGGTTAAACCTCCACTTACTCCTATCCACCGTGCAGGCATTGGAATAACAGGAACACCCTTTTATTTTGACGGTGTGGTTTATGTTAACCTTGGATTTATGAAAGCTGATGGGTCTGTCTACACACTGGAATGTGAACCAGTCCTGGTGTCACCAAGCATAACAACAAGTATATTTGGTACAAACACTGAGCAACGATTTGATGAAATACGCAAACGACAAGCTGATGATACCTTAACTTTCATTACAAAACAAAAGGAGGAAATTTGTGTTAAGGCATACAAAGAAAATTCAGACATCACTTCTGCATATATACAGGTTGCCAAAGTTACATTAATCGAAGATGGGACAACTAGTCTTGTAAAAGGGCAAATAAAAGGTACTTTGCAGCCACCATTCTTGATTGAACGTGGGTTTGACATGGAAAGTCTTGACTTAGAAATGAATGATTATGTGATTGAAGACCAAAGACGAAAAGTGATGATTCCAATCCATAACTATAGTGGAGACCGTGTCAAATTGAAAAGAGGCACAATCATTGGTCGAATGACTTCACTTGCAGAAACCAAAAACGTAAAAGAAGATGTCAATGTTGGGGCAGTTCAGTTAGATGTAGATCACATTGATGTTGGTGAGATTGAATTGGATACAAGAAAGCAACTAAACAAGTTGTTGAAATCCTACAATGACAAAATGCTGAGCAAACCTGATTCGTTACCTTCAAATTTACCACTGGAACatgaaataaaattaaagatGATTTACCACCCTATTGTACCTGTAGTAAAACCAAATGGAAGTATTCGGTTATGTATAGACTACAGAGCTTTGAACAAGAAAACTATTCCTGGTAAATACCCCATTCCTCGAGTTGAGGATTTGATAGAAAGTTTGAGAGGGTCCAGAATATTTTCTGTGATTGATTTGAAAGATGCGTATTGGCACATATCAATCAAAGAGGAAGATAAGCCAAAAACGGCTTTTGTTTTACCATACCCTTCTGGAAAGTTCTCTTGGAACCGTATGCCTTTTGGCCTAGTTGGTGCTCCATACAGTCTTTCAGCTGCACTTGGGATTGTGTTAAAAGATTGTTGGGAATTTGCTGCTTGTTACTATGATGATATCATAATCCATTCTCCTGATGTGGCCAAGCACCTTCTACATTTGGAAAAGGTCTTAGATAAATTGTCAACATATGGTCTTcgtattaatttttcaaaatgtgaATTTGCAAAGGCTGAAGTACAGTTTGTTGGAATGAAAGTTTCACCAGCGGGCATTCGTCCATTGACACGCAAAGTGAATGAAATCGTACAGTTTGAGACACCTACAGGGAAAGATAGTTTACGCACATTCCTCGGAATGGCCGGATTTTATCGAAAGTTCATTCCAGCATTTTCAGAGAACTCTGCTCCTCTTTTTGActtattgaaagaaaaaaacaagttcATTTGGGATTTGGAatgttcaaaagcatttgagtTCATCAAAGAATGTCTTTGTAAAGAAGAATTGTTGATCTTTCCACAACCTGGCAAGACCATTATCTTGCAAACTGATGCTTCTGACAAAGCAATTGGATTTGTCATGTCTCAAGAAATTGATGGACAACTAAGGCCCATACAGTTTGGAGGACGTGTATTGACTGAAGCTGAGCGTAAGTACAGTGTTACCGATAAAGAGTTGTTAGCTGTCTTTGTTGCAGTAAGTCGTTGTCAAGTTTATCTTCTTGGACAAGATTTTGTAGTTTATTCTGATCATAAACCTTTAACGCATTTGACTGCTTTCCGTGATGTGGTCAATAGAAGATATCGCTGGATACAATACCTTGAGGAGATGCAAACAATAATTCGATATGTTCCAGGCAAGGAGAATGTTGTTGCAGATTTTTTAAGTCGTACTATTAGACCTGATGCATCTTGGAATCCAATTAAAGTTAATTCAATCATTTTGGATGCTATTAACTTTAGTCAGGAAGATATGATTGCAGCACAACATGCAGATGATACTTTGAAACAGGTCATTGATTGTTTGTTAGAAAAGACGGATGTGAAATCTTATCCTGTCGAATTTCGTTCAGCTGTTGGCAAGTTGATTATTGAAAATGGTATTTTATTCTATCTTCATCATGGACAGAAACTGGTGGTATTGCCTGAGGAATTTCGAAAGGATATTCTGTTGTTGAATCATGCAAATTGGTGCTCAGGACAGTTTGGCATCTACAAAACACACAGGAACATATTGCGGAAATTCTGGTGGCCCAACTTACATCAATCGGTGAGTGAGTTTATCAAACGTTGCAGTATTTGTTTAGAAATAAAACCTCAGAACAGAAAGCATGGCAATATGGGAATTCGTGCATTCCCTGTTGCACCTCTTGAATTGATATCAATCGATTTTCTGGTTGAACTGCCAACAACTGCCAGAGGAAATAAACATATCTTGGTAATCAATGACCACTTTTCAAAATATATACAGTGTTATGCCATAAAGGACAGGACTGCTTTAACAGCTGCAAAATGCATCGttgattattgcttgaaattcgGGATACCGTATAAACTTTTGTCTGACCAGGACCCTGCATTTGAAAGTCAATTATTTCAATCATTGATGGACCTTTTGGGTGTTAAGAAAATACGTACTACTAGTTACCATCCTCAAAGTAACGGGCTAACCGAACAGTCAAACTCAGTCATCAAACAGTATCTTACTGCCTTCTTGAATGAGGATACATCTCAACGTCCTGAATGGGATTGTTGGACGAGAGAAGTTGCATATGCTTATAATACCAGTGTACACAGCAGTACGGGTTTCACACCAGCAGAACTTATGTTCGGGCGGACATTTCGAACACCCATTGATTTGTTATACGGTACGTTTATCCAAAATTCGTCTCAGCCACAGACACTTGAAGACTTTTCGAACAAATTGGAAAAGCTATACGAATTGGCAAGAAACAGCATGCAGACACGGCAAAGAGTATCAGCAACTTACTACGATAAGAGAGTAAAAGATGACCCTTTGGCAATTGGTGACAGAGTTTACACTTACCTACCCCGAAATAAACGTGTCAAGTTAGCTAGAAAATGGTGTGGACCATGTGTTGTTGTTGAGGCTTCGCAGCAGCACTTCTTAGAATAA

Transcript

evm.model.HiC_scaffold_3.43

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P0CT41	Transposon Tf2-12 polyprotein OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=Tf2-12 PE=3 SV=1
P0CT34	Transposon Tf2-1 polyprotein OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=Tf2-1 PE=3 SV=1
P0CT35	Transposon Tf2-2 polyprotein OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=Tf2-2 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000010 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF17917 all species →	RT_RNaseH	RNase H-like domain found in reverse transcriptase	Domain	Interproscan
PF00665 all species →	rve	Integrase core domain	Domain	Interproscan
PF00078 all species →	RVT_1	Reverse transcriptase (RNA-dependent DNA polymerase)	Domain	Interproscan
PF17921 all species →	Integrase_H2C2	Integrase zinc binding domain	Domain	Interproscan
PF14893 all species →	PNMA	PNMA	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR041373 all species →	Domain	Reverse transcriptase, RNase H-like domain	Interproscan
IPR001878 all species →	Domain	Zinc finger, CCHC-type	Interproscan
IPR001584 all species →	Domain	Integrase, catalytic core	Interproscan
IPR000477 all species →	Domain	Reverse transcriptase domain	Interproscan
IPR043502 all species →	Homologous_superfamily	DNA/RNA polymerase superfamily	Interproscan
IPR043128 all species →	Homologous_superfamily	Reverse transcriptase/Diguanylate cyclase domain	Interproscan
IPR036397 all species →	Homologous_superfamily	Ribonuclease H superfamily	Interproscan
IPR036875 all species →	Homologous_superfamily	Zinc finger, CCHC-type superfamily	Interproscan
IPR012337 all species →	Homologous_superfamily	Ribonuclease H-like superfamily	Interproscan
IPR050951 all species →	Family	Retrovirus-related Pol polyprotein	Interproscan
IPR041588 all species →	Domain	Integrase zinc-binding domain	Interproscan
IPR048270 all species →	Domain	Paraneoplastic antigen Ma-like, C-terminal domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR37984 all species →	PROTEIN CBG26694	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0015074 all species →	Biological Process	DNA integration	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

No KEGG orthology assignment for evm.model.HiC_scaffold_3.43.

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