Gene detail

Detailed information of evm.model.HiC_scaffold_307.6 in Chrysaora quinquecirrha

Genomic Location: HiC_scaffold_307:77164...79544
NR annotation: CAB3987012.1, ABC transporter, ATPbinding domain containing [Paramuricea clavata]
Species Chrysaora quinquecirrha · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

evm.model.HiC_scaffold_307.6

ATGATCGTGTTGTCGGAGAATGCATCTATTGATAACCAATGCAGGTCAACAAATCATCTACCACCGTTTGAATGCTGCAAAAAGAATTATGAAGAGTTTTGCTGTCCTTTTGTTACCAAATGTGGCAATCATACTAATTCATTGCAGAAAGAAACGAATACGTCCACATCTAAAGGTCGGCCAGAGTGTTCGCTCCCTTATCTAACGAATGCTTGCTTAGGAGGATTCTATAAAGGAATAAATAACACAGTATTGCCGTGCCCTGAAGGATTTTTTTGCCCTAGTGGAACAACCTGTATTGTACCATGTGCTACTGGCGCAGTCTGCTTAAATTTGCCGTCGAAAGAATCAGCTTGTAACAACTCGATGAGGACAATCAGCATGTGCAAATTATTGGGCAGAAGTCCTGTTTTCCTCGATGGTAAATGGATTTGCCCTGGAGCGCAACAGCAACGGATTTGTCGTCCGGGATATTACTGTCCAAATACATCTATAGAATATCCATGTCCAACCGGATACTTCTGCAGGCTTGGCTCTACTAGACCTACCAAATGTGCAATTCTGCAATATTGCGGAAAGGGTAAATCGATGACAGCACTATTCATCGAAATGCCGGTTCGCATCCTATCAATACTTGGCTTTTTCGTTGTAGTGTACTATTCGTATAAGCAAAGACATTGGCTTCATGGGTTGTGTAGAATGCATTCCTCTCGAGTCAGCCTTCACCAGTCGAACACACTTTGTGATAAAATAGTTTTCATGACCTTAATGGCAAAACCAATACTGATAAACGCAGAAGAGAAAAAGCAACAAGTAACCATCAGATTCAGAGATGTCAAATTTGTGTTGAAACAAGGAAAAGAATTGTTAAATGGAGTCAATGGAGTTTTGAAAGCAGGTTACATAACAGCAATAATGGGACCAAGTGGAGGGGATGAACCAACCAGTGGTCTTGATAGCGCATCTAGTTTAGCTGTTTTAAAAGCGTTACACTTCTTAGCCGAAAACACAAAATTAACGATAGCAGCAGTAATTCATCAACCTCGTTTTGAGATATTCTCAATGATGCATAGCATCATATTGCTTAGCGCTAATGGAAGAACAATTTTTCAGGGAAAACCTAATGAAATCGTTCAGTACTTCAATCAACTTGGTTTTACAGTTCCAAAAAGAGTCAACCCAGCTGATTTTATAATGGATGTAGTAAGTGGAGTCACTTGGCGACAGCAATGTCTTTCTACTGTGAAAAGTCAAGAAGTATCCCCTTGGCAACTCACTaatattgatgaaaatgataattacGCGAAAGAAAGTGAAGAATTCACTCAGGGGGATCctaaaattggtaaaaattctGCTTTCATTGATCAGTTTATTGCATTTTTGAAGCGCGAATTTATACTACAAGGAAGAAACATGAACACGATGCTTTTAAATTATGCGTTGACAATTTTAGTTGGCTCTGTGCATGGTGCAGCATACAACGAACTTGAATTCAAGAAGACAATTTTAATGGCCACAATGAGCTCATTAATGATTGGTCTGACATGTTCTATCATATCTTTACGATGCTTCAATTCATACCCAGCTGTTTTAATTCGAGAAGCTTCTTCTGGTGTCAACATTGCCAGCTATTACTTGGCCGTGAATGCAGCACAAATACCACACCTTATTGCACTTCCATTGGCGTATTTAAGTCTGAACTACCTACTGATCCACCCAAGAACATCATTTCGTGTATACTATCTAGTGTCACTGATGACCTATCTAAATGTTTCAGGTATTGCATACATTATATCAATCGCATTCAGCAGAAAGAATGGTCAGATGGCAGCGGTATTTTTCATACTCCTTTCGTCAATTCTATCAGGATCCACTCCAAGCCTTTGTGACTTAGATAAAATTCCAGTGGTTGGAGCAGCACTTTACAATATGTCATATGCAAGATGGTTTGTTGAAGCTTTGTTTGAGAAAGAGCAAGGCTTTTACCAGCAGTCATGA

Transcript

evm.model.HiC_scaffold_307.6

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
H9BZ66	ABC transporter G family member 1 OS=Petunia hybrida OX=4102 GN=ABCG1 PE=2 SV=1
Q55DW4	ABC transporter G family member 1 OS=Dictyostelium discoideum OX=44689 GN=abcG1 PE=3 SV=1
Q4WFQ4	ABC multidrug transporter H OS=Aspergillus fumigatus (strain ATCC MYA-4609 / CBS 101355 / FGSC A1100 / Af293) OX=330879 GN=abcH PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003011 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF19055 all species →	ABC2_membrane_7	ABC-2 type transporter	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR050352 all species →	Family	ATP-binding cassette subfamily G transporters	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR043926 all species →	Domain	ABC transporter family G domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR48041 all species →	ABC TRANSPORTER G FAMILY MEMBER 28	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0042626 all species →	Molecular Function	ATPase-coupled transmembrane transporter activity	Interproscan
GO:0055085 all species →	Biological Process	transmembrane transport	Interproscan
GO:0140359 all species →	Molecular Function	ABC-type transporter 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

No KEGG orthology assignment for evm.model.HiC_scaffold_307.6.

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

Co-expression network

Genes whose expression across the transcriptome samples of Chrysaora quinquecirrha tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Chrysaora quinquecirrha, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.	template found	open →
Expression heatmap	Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.	no expression matrix	–
Gene family / orthogroup	Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.		open →
Gene set analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →