Gene detail

Detailed information of ENSAVKP00000013697.1 in Catalaphyllia jardinei

Genomic Location: chr13:2912838...2919763
NR annotation: XP_020610297.1, transport and Golgi organization protein 6 homolog [Orbicella faveolata]
Species Catalaphyllia jardinei · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSAVKT00000014810

ATGAAAAAGTTGGTGGTGATTTTGTTGATGAACTCACACTTACAAGATGTGTTGAAGATATTCACAAGCATTATTCTAGGTAATTCTTTAGtgaaaaactcagagcaaaatttcctggcACTACACGTGGCTAATCCATGGCAAAAATTGCCTGTGTCCATAATGCTTTCCCAAAAGGTCAATAAGAAAAGGAACTTAAAGCTTAAAGACACTTTCTTGTCCAAAAAACAATCTCAAAATGTTGATTTCTGCACATGTACTACAACAGAACAAGGTGTCTTCGTTTCAGGGTCACTTGATGATGAGTTAAGATTTTTGTTGCCAGTTGTCCATCCATTGTTTGAACTCTTCTGTTTCACAAGGAAAGGAATTTGTCATCTAAGgTCTGCTCTTGAAGAAATCCTTATCTACACACTAGAGAATGCTGAGCAATGTCAAACTCTCCAACTGTTGTATACTCTGGCTTTTAGAATGAGCCCACCAGAGAATTTAGTTCTAACAGACACTGCCTTCAAAATTGAGAAACAAGACTTTTTTGTTCCTCTGATGATTGGCAATTTTGTGTTTGCACATGGAGATGATGGTGGTGTGATAATTAGATATCAGAATGATAATGCTGATAAAGGTGGTAATGTTGATGACATCTTGAGGGATTTGCAAGGAGCTGATTTAAGTAGCAGTGAAGTGCGAGCATTGTGCATCGTGGAACTCTTAGATGGTCTGAAGAAGGATGATGTTAGTGGAGACTTCTTTATATACCTGATGCAGGAGTTGACTTATATCATATCAGACTTTTCAGATGACATGGACAATACAAACTCTGGAGatataCAACACAGTCTTCTGATTCTCCACCTTATTGCACTCATGTGTGAGAGACTTGGAGAGGCCATTCTCAGGAATGCTTCACAGATGCTCATCTTCATAGAGTCTACACTGAAGCGTGCCTGTGCCATTATGCATGCAGACGAGGAGGGACTGGGAACAGCATTTATTACCGAGACACTGACGATGGCCCTTGGGATGTTGTCAGCAATGTTGGGCGGAGCAGCTGAGATTAAGATAGAAAATCAACCTCAAGTCCAAGATCTTCTACCTTTACTGAAAATGGTAGCTGAGCAACATCTGTCAGAAAAGATCAAGGATATGGCTTATGATTTGAGGATTGCTATAGCAACATACGGGGCAGTATGGAGTCACAGAATGGACATTGCCGCAAAGACTTTAGGACAGGATACTGAAACAGTAAAGGTTGATTCAAGGTCAGCAACAACCGAAGGAAAAGCTTCCTCTACATTTGACGAAGCATTTTCCCAGCTCTGTGATCCTTTGCTTCCTGTGCGAGGCCATGCAATGATACAACTGGCCATGCTTTTGCGCCAGAGAGATCCTAAAGCTGTGCAAACCACTGATACCTTATTGAAGATTTTTCTGGAACAACTTTCACACGATGACTCTTATATATACCTAGCTGCTATTCAGGGACTTGTCTCATTGGCTGATGTAAGGGCTGATATGGTTATACCACGACTTGCTTGTGAATTTGCTATGTGCCAGAAGGAGGCTGGAAATGTTGCAGTCAGGACAAAGGATGCTAATGAGAAGGGTTATTGTAAACAAAGTGAAGAAGGTTGGTTTGTTTCACCCATATCAAGCCGACCTGCCAGATCTCCTGAGCAAAGAATGAAATTAGGAGAGGCTCTGGTCCGAGCCACCAGGAACTGCGGTGAACTGGTACCTAAATATTCTCAACATCTTTTATCAGCCTTGTTGACTGGGGTAAAAGATCCTGAGCCTCTTGTGCGGGCCAGCAGTCTCTCTAATCTTGGTGATGTCTGTCAGTTGTTGAGGTTCTCATTGGGTCCAGTTGTGCATGAGATTTTCAGTTGTGTGTCAGCAGTACTGAAAACTGACAAGTCAGCAGACGTCAGACGTGCTGCAGTGCTAGTCATGACTTTAATACTGCAGGGACTGGGGAAGAACATAATGGAGGACCTCAGCTCCACACTTAAGGACATTTACCAGTTATTAAAGATTGTGGAGTTAACAGACACTGATCATGTTACTAGAGGTCATGCACAGGCTGCTGTGGGAGAACTGGATGCCATCACAAGAGATTACTTGTTTCCTAAGCCCTCTTTCACTAAACATATTCAAGTACTGCCTTAA

Transcript

ENSAVKT00000014810

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8C3S2	Transport and Golgi organization protein 6 homolog OS=Mus musculus OX=10090 GN=Tango6 PE=1 SV=1
Q9C0B7	Transport and Golgi organization protein 6 homolog OS=Homo sapiens OX=9606 GN=TANGO6 PE=1 SV=2
Q9VJ29	Transport and Golgi organization protein 6 OS=Drosophila melanogaster OX=7227 GN=Tango6 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004022 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF10363 all species →	RTP1_C1	Required for nuclear transport of RNA pol II C-terminus 1	Repeat	Interproscan
PF02985 all species →	HEAT	HEAT repeat	Repeat	Interproscan
PF10304 all species →	RTP1_C2	Required for nuclear transport of RNA pol II C-terminus 2	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019451 all species →	Domain	RNA polymerase II assembly factor Rtp1, C-terminal	Interproscan
IPR000357 all species →	Repeat	HEAT repeat	Interproscan
IPR039600 all species →	Family	TANGO6/Rtp1	Interproscan
IPR011989 all species →	Homologous_superfamily	Armadillo-like helical	Interproscan
IPR019414 all species →	Domain	RNA polymerase II assembly factor Rtp1, C-terminal domain 2	Interproscan
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR20959 all species →	TRANSPORT AND GOLGI ORGANIZATION PROTEIN 6 FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0009306 all species →	Biological Process	protein secretion	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 ENSAVKP00000013697.1.

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 Catalaphyllia jardinei 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 Catalaphyllia jardinei, 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 →