Gene detail

Detailed information of g639.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: XP_047123160.1, TBC1 domain family member 22B [Hydra vulgaris]
Species Calvadosia cruxmelitensis · all data for this species · gene families

Sequence

Sequence data are not available for Calvadosia cruxmelitensis.
Nucleotide and protein sequences are provided for the species whose genome annotation is complete (see annotated genomes); for this species only the assembly is archived. The functional annotation below is likewise unavailable.

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9NU19	TBC1 domain family member 22B OS=Homo sapiens OX=9606 GN=TBC1D22B PE=1 SV=3
Q95LL3	TBC1 domain family member 22B OS=Macaca fascicularis OX=9541 GN=TBC1D22B PE=2 SV=1
Q8WUA7	TBC1 domain family member 22A OS=Homo sapiens OX=9606 GN=TBC1D22A PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000000 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000104 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000153 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001666 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003541 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0004420 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0004759 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0007896 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00566 all species →	RabGAP-TBC	Rab-GTPase-TBC domain	Family	Interproscan
PF07904 all species →	Eaf7	Chromatin modification-related protein EAF7	Family	Interproscan
PF12205 all species →	GIT1_C	G protein-coupled receptor kinase-interacting protein 1 C term	Domain	Interproscan
PF16559 all species →	GIT_CC	GIT coiled-coil Rho guanine nucleotide exchange factor	Coiled-coil	Interproscan
PF18701 all species →	DUF5641	Family of unknown function (DUF5641)	Domain	Interproscan
PF05380 all species →	Peptidase_A17	Pao retrotransposon peptidase	Family	Interproscan
PF03184 all species →	DDE_1	DDE superfamily endonuclease	Family	Interproscan
PF04218 all species →	CENP-B_N	CENP-B N-terminal DNA-binding domain	Domain	Interproscan
PF03221 all species →	HTH_Tnp_Tc5	Tc5 transposase DNA-binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000195 all species →	Domain	Rab-GAP-TBC domain	Interproscan
IPR035969 all species →	Homologous_superfamily	Rab-GAP-TBC domain superfamily	Interproscan
IPR012423 all species →	Family	Chromatin modification-related protein Eaf7/MRGBP	Interproscan
IPR002490 all species →	Family	V-type ATPase, V0 complex, 116kDa subunit family	Interproscan
IPR022018 all species →	Domain	ARF GTPase-activating protein GIT1, C-terminal	Interproscan
IPR047161 all species →	Family	ARF GTPase-activating protein Git-like	Interproscan
IPR032352 all species →	Domain	Arf GTPase-activating protein GIT1/2, coiled-coil domain	Interproscan
IPR040676 all species →	Domain	Domain of unknown function DUF5641	Interproscan
IPR043502 all species →	Homologous_superfamily	DNA/RNA polymerase superfamily	Interproscan
IPR008042 all species →	Family	Retrotransposon, Pao	Interproscan
IPR004875 all species →	Domain	DDE superfamily endonuclease domain	Interproscan
IPR009057 all species →	Homologous_superfamily	Homeobox-like domain superfamily	Interproscan
IPR006600 all species →	Domain	HTH CenpB-type DNA-binding domain	Interproscan
IPR050863 all species →	Family	Centromere and Transposable Element-Derived Protein	Interproscan
IPR007889 all species →	Domain	DNA binding HTH domain, Psq-type	Interproscan
IPR034584 all species →	Family	Sperm microtubule inner protein 8	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22957 all species →	TBC1 DOMAIN FAMILY MEMBER GTPASE-ACTIVATING PROTEIN	Interproscan
PTHR13581 all species →	MRG-BINDING PROTEIN	Interproscan
PTHR11629 all species →	VACUOLAR PROTON ATPASES	Interproscan
PTHR46097 all species →	G PROTEIN-COUPLED RECEPTOR KINASE INTERACTING ARFGAP	Interproscan
PTHR22955 all species →	RETROTRANSPOSON	Interproscan
PTHR19303 all species →	TRANSPOSON	Interproscan
PTHR35348 all species →	TESTIS, PROSTATE AND PLACENTA-EXPRESSED PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0090630 all species →	Biological Process	activation of GTPase activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0043189 all species →	Cellular Component	H4/H2A histone acetyltransferase complex	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0016573 all species →	Biological Process	obsolete histone acetylation	Interproscan
GO:0035267 all species →	Cellular Component	NuA4 histone acetyltransferase complex	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0007035 all species →	Biological Process	vacuolar acidification	Interproscan
GO:0016471 all species →	Cellular Component	vacuolar proton-transporting V-type ATPase complex	Interproscan
GO:0033179 all species →	Cellular Component	proton-transporting V-type ATPase, V0 domain	Interproscan
GO:0046961 all species →	Molecular Function	proton-transporting ATPase activity, rotational mechanism	Interproscan
GO:0051117 all species →	Molecular Function	ATPase binding	Interproscan
GO:1902600 all species →	Biological Process	proton transmembrane transport	Interproscan
GO:0007420 all species →	Biological Process	brain development	Interproscan
GO:0008277 all species →	Biological Process	regulation of G protein-coupled receptor signaling pathway	Interproscan
GO:0031267 all species →	Molecular Function	small GTPase binding	Interproscan
GO:0032012 all species →	Biological Process	regulation of ARF protein signal transduction	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0003677 all species →	Molecular Function	DNA 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
K11343	MRGBP; MRG-binding protein	-	Chromosome and associated proteins	ko03036	deepkoala
K20360	TBC1D22, GYP1; TBC1 domain family member 2	-	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 Calvadosia cruxmelitensis 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 Calvadosia cruxmelitensis, 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.	sequence table not available	–
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.	sequence table not available	–
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 →