Gene detail

Detailed information of ENSFVQP00000001063.1 in Callogorgia gracilis

Genomic Location: chr1:9661814...9681409
NR annotation: no NCBI-NR hit recorded
Species Callogorgia gracilis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSFVQT00000001305

CCCTCCTCAACTTGGTCCCCTAGATGGGCCCATACTCCTCCTGGGATTCTGTGTACGGAGGGACAGCAATTTTCCCTGCTCCCTTTCCCGACACAATATCAGTCTCATAACTTAAAGTGTGAGATaaattactgtacatgttgtgttattgtttcttttaGATATGTATTGGGACATGAAACCATGCAAAAGATGGCTAGATCCAATGTTCTGATATCTGGTATGAGAGGTCTAGGGGTAGAAATAGCAAAGAATGTTGTACTTGGTGGAGTGAAATCTGTTACAATTCATGATGTTGGTAACATAACTATTGGTGATCTCTCTTCTCAAtatttttttaaacagcaAGATATTGGTTGCAACCGTGCAGAAATTACTCACTCTCATATATCAGAACTTAACAGCTATGTTCCTGTATCAACATACACAAAGGAACTTACAGAAGAACTACTCAGACAATTTCAGGTTGTTGTCCTCACATCGTCATCCTTAGATGAACAAAAATGGGTTGGTGAGTTTTGCCATGGTGcaaaaatcaaatttattgTTGCAGATACTAGAGGTTTATTTGGTCAGATATTCTGTGATTTTGGAAAGGATTTCGTGGTTACTGATACAAATGGTGAACAAGGAATTACAATTATGGTTTCAGCCATAACTAAGGGCAAGGAAAGCATCGTGACTTGTCAAGATGAACAAAGACATGGATTTGAAAGTGGGGATTATGTCACATTTAAGGAAATACAgGGGATGAAAGAGCTTAATAATTGTGAACCAcgaaaaattaaagttttggGACCATATACATTTAGTATTGGAGACACTTCAGGACTTTCAGATTATGTGTCTGGTGGTTACGCTGTGCAGTGCAAAATGCCAAAAACATTGGACTTTAAAACAATTAAAGAAGCGTTGCATCAGCCTGAATTTTTGATAACGGATTTCGCCAAGTTTGAACGACCTGCACAACTTCACCTTGGTTTCCAggtaaatgtttatttgttttggtttttaaaCATGACCATTTATTATAACTGTTCCCtagttgtttgttgttttacttTTGATGATGCCACAAAGTTTATTCAAATAGCAAAAGAGTTAAATGGACAAATCTGTAGCAAGGTTGACGAGATTGATGAAAGTTTATTGCATGAATTGTCTTTCCAAGCTCGTGGTGACTTGTGTCCCATGCAAGGTGTGATTGGTGGGATTGCTGCACAGGAAGTGATGAAGgCATGTAGTGGAAAGTTCCATCCAATTCAACAGTGGTTTTATTTTGATGCCTTGGAATGTCTCCCGGAAGAACAGGAAATCAGTGAAGAGTCGTGTAAAGCAGTTGGCTCTAGATACGATAGTCAAGTTTGTGTGTTTGGAAAGGAATTCCAAGAAAAAATCAGTATCCAAAAGTATTTTGTTGTAGGTGCTGGAGCTATTGGGTGTGAACTGTTAAAGAATTTCTCTATGATTGGTATAGCGTCTGATCCTAGAGGAAAGATCTTCGTAActgatatggatagtatagaaAGATCAAATCTTAATCGTCAGTTCTTATTCCGACCTGCTGATGTTCAAAAACTCAAATCCGACGCGGCTGCTTTAGCTGTTAAAAGAATGAACCCGGATGTACACATAATATCTCATCAGAATAGAGTTGGACCTGACACAGAAAATatccttttttttaaaaaaaaatttacagtaAATTTATATGGTGATGAATTCTTTGAAAATCTAGATGGTGTTGCAAATGCTTTGGATAATATTGATGCAAgAATGTATATGGACAGACGATGTGTATACTACAGAAAGCCTTTACTAGAATCTGGAACATTGGGAACCAAAGGCAATGTTCAGATTGTCTATCCTTTCTTAACCGAGTCTTACAGCTCTAGTCAAGATCCACCTGAGAAGTCCATTCCTATTTGTACTTTGAAAAACTTTCCAAATGCGATAGAGCATACTCTGCAGTGGGCTAGAGACGCATTTGAAGGTTTATTTACCCAGATGGCTGAAAATTCTTTACAATATTTAAGTGACCCAAAGTTTTTGGAAAGACTAGCCAAACTACCCGGGATTCAACAGGTTGAAAATCTGGAAGGTCTTCGTAATAGCCTAGTTGACGAGTTACCAAAACATTTTGCTGATTGTGTAAAGTGGGCCAGACTTCTTTTCCAAGAAAATTACCATGATCAAATAGCACAACTACTGCATAACTTTCCACCTGATCAGaAAACAAGTACTGGACAGCCATTTTGGTCAGGTCCAAAACGATGTCCTCATCCGCTGAAATTCGATCCTTGCAGTGTGAGTAGTTCAGGAgGCTCAGTGGACAAGAAATATATCCTAGAAATTTTGGAACAAGTCAAAGTTTCTGTATTTCAACCTCGATCAGGTACAAAAATAGTTTgcatgctttttttttttttttgttttgttatacCGTCGACCCACCATTTTAACAACTGCATCGACGATGATACCAACTTTCACATGGACTTCATAGTCGCATGTTCAAACCTTCGTGCTGAAAACTACGATATAGCTCCAGCCGATAGACATAAGAGTAAATTAATAGCTGGTAAGATCATTCCCGCCATAGCAACAGCGTCAGCGGTAGTATCTGGACTAGTTGGTTTGGAATTATATAAGATTGTTCAAGGTAGTAAGAAACTAGAGACTTTCAAAAATGGCTTTATCAACTTAGCTCTGCCCTTTTTTGCTTTCTCGGAACCAATTTCAGCTCCTAAAaacaagTATAACGAGACGGAGTTTACTCTTTGGGAtagatttgaactatctgttAAAGAAAATGGAGAAGAACTCACACTTCAAGAATTCATGGACTATTTCCAAGAAAAACACAATTTGGAAATATCCATGCTCTCGCAAGGTGTCTGCATGTTGTACTCATTCTTTATGCCCCAAGCGAAGCTTAAAGAACGACTATCTTTGAAAATGTCGGAACTCGTTGCTAAAGTTTCCAAGAAAAAGATCAAGCCTCACATCAAAGCACTGGTGTTTGAACTTTGCTGTAACAATGCTGATGGTGAAGATGTAGAAGTTCCCTATGTCCGCTATAAATTCCGCTGA

Transcript

ENSFVQT00000001305

Protein

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001418 (this species only) · gene tree & orthology
Ubiquitin family	E1\|ThiF\|ThiF · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF10585 all species →	UBA_E1_SCCH	Ubiquitin-activating enzyme, SCCH domain	Domain	Interproscan
PF00899 all species →	ThiF	ThiF family	Domain	Interproscan
PF16191 all species →	E1_4HB	Ubiquitin-activating enzyme E1 four-helix bundle	Domain	Interproscan
PF16190 all species →	E1_FCCH	Ubiquitin-activating enzyme E1 FCCH domain	Domain	Interproscan
PF09358 all species →	E1_UFD	Ubiquitin fold domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR018965 all species →	Domain	Ubiquitin-activating enzyme E1, C-terminal	Interproscan
IPR019572 all species →	Domain	Ubiquitin-activating enzyme, SCCH domain	Interproscan
IPR018074 all species →	Conserved_site	Ubiquitin-activating enzyme E1, conserved site	Interproscan
IPR000594 all species →	Domain	THIF-type NAD/FAD binding fold	Interproscan
IPR042449 all species →	Homologous_superfamily	Ubiquitin-activating enzyme E1, inactive adenylation domain, subdomain 1	Interproscan
IPR042302 all species →	Homologous_superfamily	Ubiquitin-activating enzyme E1, FCCH domain superfamily	Interproscan
IPR038252 all species →	Homologous_superfamily	Ubiquitin-activating enzyme E1, C-terminal domain superfamily	Interproscan
IPR035985 all species →	Homologous_superfamily	Ubiquitin-activating enzyme	Interproscan
IPR018075 all species →	Family	Ubiquitin-activating enzyme E1	Interproscan
IPR032420 all species →	Domain	Ubiquitin-activating enzyme E1, four-helix bundle	Interproscan
IPR042063 all species →	Homologous_superfamily	Ubiquitin-activating enzyme E1, SCCH domain	Interproscan
IPR032418 all species →	Domain	Ubiquitin-activating enzyme E1, FCCH domain	Interproscan
IPR033127 all species →	Active_site	Ubiquitin-activating enzyme E1, Cys active site	Interproscan
IPR000011 all species →	Family	Ubiquitin/SUMO-activating enzyme E1-like	Interproscan
IPR045886 all species →	Family	ThiF/MoeB/HesA family	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10953 all species →	UBIQUITIN-ACTIVATING ENZYME E1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008641 all species →	Molecular Function	ubiquitin-like modifier activating enzyme activity	Interproscan
GO:0036211 all species →	Biological Process	protein modification process	Interproscan
GO:0004839 all species →	Molecular Function	ubiquitin activating enzyme activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006511 all species →	Biological Process	ubiquitin-dependent protein catabolic process	Interproscan
GO:0006974 all species →	Biological Process	DNA damage response	Interproscan
GO:0016567 all species →	Biological Process	protein ubiquitination	Interproscan
GO:0032446 all species →	Biological Process	protein modification by small protein conjugation	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
K03178	UBE1, UBA1; ubiquitin-activating enzyme E1	EC:6.2.1.45	Exosome	ko04147	deepkoala

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 Callogorgia gracilis 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 Callogorgia gracilis, 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 →