Gene detail

Detailed information of gene11396.t2 in Actinoscyphia liui

Genomic Location: chr3:34191335...34205329
NR annotation: XP_020906856.1, dnaJ homolog subfamily C member 10 [Exaiptasia diaphana]
Species Actinoscyphia liui · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

gene11396.t2

ATGCCAAGACTGTGCCAACACCGTGCCAACACTGTGCCAAGACTGTGCCAAGACTGTGCCAAGACCGTGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCGTGCCAACACCATGCCAAGACCATGCCAAGACCATGCCAAGACTGTGCCAAGACTGTGCCAAGACCATGCCAAGACCATGCCAAGACCGTGCCAAGACTGTGCCAAGACCGTGCCAAGACTGTGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACTGTGGCAAGACCATGCCAAGACCATGCCAAGACTGTGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCGTGCCAACACCATGCCAACACCATGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACTGTGGCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCGTGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAACACCATGCCAACACCATGCCAAGACCGTGCCAAGACCGTGCCAAGACCGTGCCAAGACCGTGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCGTGCCAACACCATGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCGTGCCAAGACCGTGCCAAGACCATGCCAAGACCATGCCAAGACCGTGCCAAGACCGTGCCAAGACCGTGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACTGTGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACCATGCCAAGACTGTGCCAAGACTGTTTATACGATGATGATTCTGAAATTATAACTCTTAGCTACTCAGATTTCCAATTATCTGTGGAAGGCAGTGATGATATCTGGTTTATCAATTACTATTCACCTTTCTGTTCTCATTGCCATGACTTAGCTCCAACGTGGAGAGAAGTTGCAAAAGGCCTAGAAGGTGTCATTAGATTTGGAGCTGTAAATTGTCAAGAAGATTGGGCACTATGTCAACAACAGAGAATTCAGAGCTACCCATCTCTTGTACTTTACCCTTCTCAACACCTATATAGAGGACAAAGGACAGAAAGAGCACTAGTTAGATTTGTTCTGGATGCACTTGATTCCAAAGTAGTAGAATTAACAAAAGATAATTTCAAGGCAGAAACATCATTGCCAGATCATCCTTGGCTGATTGACTTCTGTGATCCATCAGGAGACTGTCTGTTAGGCGATACCAAACTAAAACTTGCATCCGTAATGGATAATTTAGTCCAGGTTGGATCAATTGATTGTTCACATGATGAGACCTTGTGTACCTCTCTTGGTTACCATGGTGAAGTTGTTTACTTTCCTGCAAATAGTTTAGAAGCTCGAAAGGGCACTGTTATAAAAAGTTTAGAAACTCATGATATTGTACAGCAAGTCTTACAATTATTGCCTGGGCCACAGAGTATAGATATCAAGAGTTTTCAAGAACTACTTAAAGAACTAGAAGCTGATGATCAGCAGCCTTGGCTTGTTCACTTTGACAAAGGAGCTGCCGCTGGAATAGAAATCAAAAAGTTACCAGGTGTTATAAGTGATATGAAGGTTGGTCATGTCGACTGTTCCAATGCAAATGACCTCTGTCAATCACTTCATGTCACAAAATATCCTCGTATTGCCTTGTTTAAAAAAGTTGGCTTTGAATGGCATCATGGTCGTTTTACGGCACATGACATTGCTGTGTTTGCTAAGGAAAGTGCATCATCCAATGTACAAACCCTTGGTCCAGATGACTTCCCTGGTGTCATCGCACCGAATCGTCCTTTCTTTGTGGACTTCTTTGCTCCTTGGTGTCCTCCCTGCATGAAGCTTTTACCAGAATACCGCAAAGCATCGCGGTCCTTCATTGGAAAACGCAACATTGGATTTGGGACTGTGGACTGTACAGTTCACGTCAATCTGTGCCGTATGTATAATATTCACTCCTACCCAACTACTATTTTGTACAACAACACAATACCAATCCAGTTTAGTGGACACCATTCTGCTGGTGATTTAATAGACTTTGTTGAGAACACTCTCAGTCCATCCGTTGTGGATTTAACCCCAGAAACCTTTGAATCGCTCGTCAGTCATAGAGACTTTGGCGATACTTGGCTGGTTGACTTCTACGCACCTTGGTGCGGCCCATGTCAGGAACTCTTGCCCAACTGGAACAAATTAGCAAAGCGTTTAAAAGGAGATGCACACGTGGCTTCAGTAGATTGTGTCAAACACCGAAATTTCTGTTTGCAACAAAACGTACGTTCCTATCCAACCATTCGACTATATTCCCATGGAAGCACTGGATCGTGGGATTATGTTGTCCATGACCAAGGCTGGAGAGACGTCGAGTCATTGTACATATGGTCCTATCAACACCTTCCATCGATAGTAACAGACGTTACAGGAGATCTCTTTTATAGTGAAATACTCAATAGTGAAGAGCCGTGGCTGCTGGATTTTTACGCTCCATGGTGTGGTCCTTGTATGCGATTTGCTCCTCATTTTGAAAGAGTTGCCAAGATGTTTGGCGAGAAAGTGCGATGTGGAAAGGTGAACTGTGAGCAAGATTATCAACTTTGTCACCAAGCTGCCATTCAATCTTACCCTTCAGTAAGACTCTACCTAGGCGCACAGAGTGGAATGTCTCAGTCCTTGGAGGGAGATACATACGTTGAAACACAAGTACCTGAAGAAATCTTTGAGTTGGTCAAACAAGGACTCGAAGAGAGAGAAGACAAAGAAATGGGCGACGATAAGGATGACAAAGAACCGAAGGATTTGCGAGAAGAGAAAGATGAAAGAGAAATTAAAGAGGAAAGAGAGGAAAGAGATGAAAGAGAAATTAAAGAAGAGAGAGAGGAAAGAGATGAAAGAGAAATTAAAGAAGAGAGAGATGAAGCGGATGAAAGAGAAATTAAAGAGGAGAGAGAAGAGAGGGATGAAACGGATGAAAGAGAAGGACACGACAATTTTGAAAGAGAAAGAGAAGCAGCTGAAGAAAAGGATGAAAGGGAAGAAGAGACGGAAGAAAGAGAAGTGCCGGAGGAAGCTCTAAAGGATGACGAACGAGAAGAGGTTGCAGAGGAAACTCACAAAGATGACGATGTCATGCATGAACCTAGGCATCCTATCCACGATGAGTTTTAA

Transcript

gene11396.t2

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8IXB1	DnaJ homolog subfamily C member 10 OS=Homo sapiens OX=9606 GN=DNAJC10 PE=1 SV=2
Q5R5L3	DnaJ homolog subfamily C member 10 OS=Pongo abelii OX=9601 GN=DNAJC10 PE=2 SV=1
Q9DC23	DnaJ homolog subfamily C member 10 OS=Mus musculus OX=10090 GN=Dnajc10 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005586 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00085 all species →	Thioredoxin	Thioredoxin	Domain	Interproscan
PF21410 all species →	MAP6	Microtubule-associated protein 6	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013766 all species →	Domain	Thioredoxin domain	Interproscan
IPR036249 all species →	Homologous_superfamily	Thioredoxin-like superfamily	Interproscan
IPR017937 all species →	Conserved_site	Thioredoxin, conserved site	Interproscan
IPR007882 all species →	Family	Microtubule-associated protein 6	Interproscan
IPR052460 all species →	Family	Endoplasmic reticulum disulfide reductase	Interproscan
IPR035674 all species →	Domain	ERdj5, C-terminal thioredoxin domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR44340 all species →	DNAJ HOMOLOG SUBFAMILY C MEMBER 10	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000226 all species →	Biological Process	microtubule cytoskeleton organization	Interproscan
GO:0005516 all species →	Molecular Function	calmodulin binding	Interproscan
GO:0005874 all species →	Cellular Component	microtubule	Interproscan
GO:0008017 all species →	Molecular Function	microtubule binding	Interproscan
GO:0005788 all species →	Cellular Component	endoplasmic reticulum lumen	Interproscan
GO:0015035 all species →	Molecular Function	protein-disulfide reductase activity	Interproscan
GO:0016671 all species →	Molecular Function	oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor	Interproscan
GO:0036498 all species →	Biological Process	IRE1-mediated unfolded protein response	Interproscan
GO:0051787 all species →	Molecular Function	misfolded protein 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
K09530	DNAJC10; DnaJ homolog subfamily C member 10	EC:1.8.4.-	Membrane trafficking	ko04131	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 Actinoscyphia liui 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 Actinoscyphia liui, 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 →