Gene detail

Detailed information of g780.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: EDO37187.1, predicted protein, partial [Nematostella vectensis]
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
Q8TEQ6	Gem-associated protein 5 OS=Homo sapiens OX=9606 GN=GEMIN5 PE=1 SV=3
Q8BX17	Gem-associated protein 5 OS=Mus musculus OX=10090 GN=Gemin5 PE=1 SV=2
A7RL75	Tetratricopeptide repeat protein 36 homolog OS=Nematostella vectensis OX=45351 GN=ttc36 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000005 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000055 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000304 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001085 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003077 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0004031 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0004035 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0005151 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0005876 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0007023 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0014997 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0024791 (this species only) · gene tree & orthology
Transcription factor family	TF_bZIP · all TF in this species
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|CDC20 · all ubiquitin genes in this species
Ubiquitin family	DUB\|ULP\|ULP · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|DWD · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13431 all species →	TPR_17	Tetratricopeptide repeat	Repeat	Interproscan
PF18402 all species →	Thioredoxin_14	Thioredoxin-like domain	Domain	Interproscan
PF02902 all species →	Peptidase_C48	Ulp1 protease family, C-terminal catalytic domain	Domain	Interproscan
PF04665 all species →	Pox_A32	Poxvirus A32 protein	Domain	Interproscan
PF12457 all species →	TIP_N	Tuftelin interacting protein N terminal	Family	Interproscan
PF06297 all species →	PET	PET Domain	Domain	Interproscan
PF00412 all species →	LIM	LIM domain	Domain	Interproscan
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan
PF00170 all species →	bZIP_1	bZIP transcription factor	Coiled-coil	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan
IPR019734 all species →	Repeat	Tetratricopeptide repeat	Interproscan
IPR038906 all species →	Family	Tetratricopeptide repeat protein 36	Interproscan
IPR009448 all species →	Family	UDP-glucose:Glycoprotein Glucosyltransferase	Interproscan
IPR040692 all species →	Domain	UGGT, thioredoxin-like domain 3	Interproscan
IPR003653 all species →	Domain	Ulp1 protease family, C-terminal catalytic domain	Interproscan
IPR038765 all species →	Homologous_superfamily	Papain-like cysteine peptidase superfamily	Interproscan
IPR006758 all species →	Family	Poxvirus A32	Interproscan
IPR022159 all species →	Domain	Tuftelin interacting protein, N-terminal domain	Interproscan
IPR045211 all species →	Family	TFP11/STIP/Ntr1	Interproscan
IPR001781 all species →	Domain	Zinc finger, LIM-type	Interproscan
IPR033725 all species →	Domain	LIM1 prickle	Interproscan
IPR010442 all species →	Domain	PET domain	Interproscan
IPR033727 all species →	Domain	LIM3 prickle	Interproscan
IPR033723 all species →	Domain	PET prickle	Interproscan
IPR047120 all species →	Family	Prickle/Espinas/Testin	Interproscan
IPR033726 all species →	Domain	LIM2 prickle	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR052640 all species →	Family	WD repeat domain-containing protein Gemin-5	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR004827 all species →	Domain	Basic-leucine zipper domain	Interproscan
IPR052470 all species →	Family	Endoplasmic Reticulum Stress-Regulated Transcription Factor	Interproscan
IPR046347 all species →	Homologous_superfamily	Basic-leucine zipper domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR21405 all species →	CDNA SEQUENCE BC021608	Interproscan
PTHR11226 all species →	UDP-GLUCOSE GLYCOPROTEIN:GLUCOSYLTRANSFERASE	Interproscan
PTHR34718 all species →	PHD-TYPE DOMAIN-CONTAINING PROTEIN	Interproscan
PTHR23329 all species →	TUFTELIN-INTERACTING PROTEIN 11-RELATED	Interproscan
PTHR23159 all species →	CENTROSOMAL PROTEIN 2	Interproscan
PTHR24211 all species →	LIM DOMAIN-CONTAINING PROTEIN	Interproscan
PTHR46362 all species →	GEM-ASSOCIATED PROTEIN 5	Interproscan
PTHR46542 all species →	X-BOX BINDING PROTEIN 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0060271 all species →	Biological Process	cilium assembly	Interproscan
GO:0003980 all species →	Molecular Function	UDP-glucose:glycoprotein glucosyltransferase activity	Interproscan
GO:0005783 all species →	Cellular Component	endoplasmic reticulum	Interproscan
GO:0006486 all species →	Biological Process	protein glycosylation	Interproscan
GO:0018279 all species →	Biological Process	protein N-linked glycosylation via asparagine	Interproscan
GO:0051082 all species →	Molecular Function	unfolded protein binding	Interproscan
GO:0071712 all species →	Biological Process	obsolete ER-associated misfolded protein catabolic process	Interproscan
GO:0006508 all species →	Biological Process	proteolysis	Interproscan
GO:0008234 all species →	Molecular Function	cysteine-type peptidase activity	Interproscan
GO:0000390 all species →	Biological Process	spliceosomal complex disassembly	Interproscan
GO:0071008 all species →	Cellular Component	U2-type post-mRNA release spliceosomal complex	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0000387 all species →	Biological Process	spliceosomal snRNP assembly	Interproscan
GO:0003730 all species →	Molecular Function	mRNA 3'-UTR binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0032797 all species →	Cellular Component	SMN complex	Interproscan
GO:0003700 all species →	Molecular Function	DNA-binding transcription factor activity	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0000977 all species →	Molecular Function	RNA polymerase II transcription regulatory region sequence-specific DNA binding	Interproscan
GO:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	Interproscan
GO:0006990 all species →	Biological Process	obsolete positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response	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
K04511	PRICKLE; prickle	-	Wnt signaling pathway	ko04310	deepkoala
K08649	GZMM; granzyme M	EC:3.4.21.-	Peptidases and inhibitors	ko01002	deepkoala
K20776	BABAM, NBA1, MERIT40; BRISC and BRCA1-A complex member 1	-	DNA repair and recombination proteins	ko03400	deepkoala
K24941	TTC36, HBP21; tetratricopeptide repeat protein 36	-	Cilium and associated proteins	ko03037	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 →