Gene detail

Detailed information of XP_032232175.2 in Nematostella vectensis

Genomic Location: NC_064034.1:17069994...17089647
NR annotation: XP_032232175.2, GRAM domain-containing protein 4 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032376284.2

ACTAGATTTGCCCACTAGTTGCACCTTGTGCTCTATCGCGTAAACACCGAGAAGAACCTTATTTACAATTGGTTCTTTATCTTTATGGTTACTTAAAGCTCCTTGTTCTTGAAGTTACAATTCCCTGGAGCATTGCAAATAAGGCTGGAGCTTTTATCCTCGAAGCTTggtttgtcttttttatattgAGATCAAACATGCTTCGCGCTGCCTTTAAATCTAAAACCCCCAAAGATGGTGGAGAGAAAGTTTTACGTAGTTCAGGAACAAAAGAAATAGGAGACGAACTCCAGGATGACTCTCTGGAGGTCACATTTGAGCAAGAAGCCAACTCAGAAAATAGTTCTGTTTCTCTGACGGATTCTACTGCAAATAATACACCGAACGAGGGCAAAGAAGGAGAATATTCGGACGACCTTGGATCACCCATTTCTGCTACAAGTCCAATTAAAGACAAGGATTTCCCTTATACGGAGAGAGATATCTACGAAATGCAACTGGTGCAGTTACAGGAACAGTTGGTAGCTACAATGATAGAGGCACAAGAAAAAGaCGAACAACTACAAAAGTTTTCCTCCATTGATGTTGACAAGTTGTACAAAGAGCTTGAACACGAGAGAAAAAGAAGTGCTGATTTGGAGGAAAAGGTCAAGATATTAAAgcacaagaacaacaacaaattgtACAGGAAGAATGCAAGCAAAGCTGACCCTAGAAGCAAGGGAAGTAACAGACATTCATGGCATTCAGGGGCAGAAGGAGAAGATTGGGTTGATCTAGGGACAGAGCAGGATGATAGTGAAGGAGCAGAGCATAATTCATTGCCTGTGGCTGACAGCACATCAGGTCCAATCTCTGGGCCATCAGATGAAATACAGCCTGGTCAGAAGTCTAgtgGTGAATCAGAGAAACAGAAGATTTCAAAGATTGCAGAttacaagaaaataattttggaAATGCTTGTTGACAGATTATGGGATTTCGTTAATGATGAGCCTGAAACAGATGCCTGCCAGGAAGATGAAGGGGAACCCCTATCTGTTAAAAATCTGAAGGAGAATATCAACCGATTCAGTAATGGCATTTGTCCTATCACCAGTTTTGTGAAGGCTGTGAACAGACTTGTGAGCTGGTCCAATGGAACAGCATCTTTTATGGCATTTATGATCTACATGTTTGCTGCTCGATACGGCTACCTTCTCTCCTTGGTGCTACTCCTGTGCATCGGCAAGCTGTTCATGAATTATCTTCATGCCAGGGGAATTGCCTCACAACTCGGATTTAAGAAGAAAACGAAGGAAGAGCCTCCTTCTGATGATAAGAGTTGGTCAGACAAGTTCCAGCTAGTTCTTCAAGTCGCCAGAAGAGTACAggataTTTTAGGACAGATGGCTGATTCCCTGGAGAAGTTAAGAAAtctgTTGACATGGCAGCACTCTGCGACCAAGACACTTTTCACCTGCCTCTGTCTGGCATTCATAGGTTCAGTCTTCTTGCAAGGGACAACGCTTTTCATGTTCATTGCACTATTTTTTGGTATCAAGATGTTCATAATAAGACCAACGTACATACGCTTCCCCAAGGTCAAGAAACGATACGATGGTCTCGCACGAACGTGGGCCGAATTGCCTACGGATGCTGACCTTCTTTCCACGCTTAAAAAAGAGGTCCTCTCACGAGACTCGATCAATTCAAGCAGCACATCAGATGTTACAACCAACCAACTCCAAGGATCACAAAATGCTTCTTCACGGAGCTTTATTAATTTGTGTGAGCGATTGAAGATTCCAACGTCTGAGGCACCGCTACCTTCATGGGAAGAAGGCCGACATTGTTTTCTGGTTGATAAGGACAAGCCCTTTACCAACTCGAAGCAGGGGAAACTCTACCTCACACAGAGCTATCTGTGTTTCGAGAAACCAAAGTCTAGTTCCTCCAAGCATATCGCTATAAAGCTGGAAAGTATTGTTCGCTTATCAAAGTTCAAACCTATTGGAATCATGCCAGGGACTGGGATGTCCATTGAAGTCGAAGTAAAGAATGTGGACAAGCCATACATCTTTGGTGCGATGATGGGTCGAGACGAAGTGTATGACAGTATCATGAACACGGCGAAGACTACTGGCTTTCCGTGGGCTACATGACTGCGATCATTGACGTGCCAGACtattaataaattaaaaagCTGTGGGAACGCAAGCTCCTTTGACCTCTCTGGGGCGAGTGTTTTCGCCGTAATTTGTTGTTAATATTTGCTCCTGTCGTGCTATACAGTGGGTGGCTCTTGCTAAAAATTCGAGTTTGAATAGTACGCCAAGGGATATAGCCAGCGTTAGCTGACAGACATGTTTTAGGATGTCATTGTTTGGGTGTCAGGGCATTAGCTTTTGTTGTGTACATCTTATGTTTAGCTGAAGTGGCAGGATACTGATCctttaatgtatttaataaTGAAAATGGGTTATATTTCTTAGGTGAAATAAGGTCATATGAAGCACAATACAAATTGTACACATA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A2RV80	GRAM domain-containing protein 4 OS=Xenopus laevis OX=8355 GN=gramd4 PE=2 SV=1
Q6IC98	GRAM domain-containing protein 4 OS=Homo sapiens OX=9606 GN=GRAMD4 PE=1 SV=1
Q8CB44	GRAM domain-containing protein 4 OS=Mus musculus OX=10090 GN=Gramd4 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002180 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02893 all species →	GRAM	GRAM domain	Domain	Interproscan
PF08372 all species →	PRT_C	Plant phosphoribosyltransferase C-terminal	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR004182 all species →	Domain	GRAM domain	Interproscan
IPR037845 all species →	Domain	GRAMDC4, PH-GRAM domain	Interproscan
IPR037847 all species →	Family	GRAM domain-containing protein 4	Interproscan
IPR013583 all species →	Domain	Multiple C2 domain and Transmembrane region Proteins, C-terminal	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR37402 all species →	GRAM DOMAIN-CONTAINING PROTEIN 4	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006915 all species →	Biological Process	apoptotic process	Interproscan
GO:0034164 all species →	Biological Process	negative regulation of toll-like receptor 9 signaling pathway	Interproscan
GO:0043280 all species →	Biological Process	obsolete positive regulation of cysteine-type endopeptidase activity involved in apoptotic process	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
K23554	GRAMD4; GRAM domain-containing protein 4	-	Membrane trafficking	ko04131	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of XP_032232175.2 across 48 RNA-seq samples of Nematostella vectensis. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

48Samples

41TPM > 0

16Conditions

20.2Max TPM

12.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	13.02	14.69
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	10.58	15.27
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	13.14	17.05
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	16.05	18.83
whole 6 week old aboral regenerate · regenerate uncut	3	3	11.80	13.91
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	9.07	13.73
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	9.33	16.81
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	13.27	14.79
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	10.94	20.17
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	16.56	18.07
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	16.92	19.54
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	15.28	19.34
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	13.95	15.50
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	9.28	17.13
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	11.78	18.40
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	6.35	19.04

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	14.69
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	14.40
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	9.97
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	15.27
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	9.02
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	7.44
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	17.05
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	11.86
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	10.50
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	18.83
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	16.66
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	12.66
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	13.91
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	11.29
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	10.20
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	13.73
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	13.47
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	16.81
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	11.17
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	0.00
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	14.79
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	13.76
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	11.27
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	20.17
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	12.65
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	18.07
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	17.24
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	14.36
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	19.54
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	18.21
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	13.00
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	19.34
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	15.22
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	11.29
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	15.50
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	13.51
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	12.84
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	17.13
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	10.72
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	18.40
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	16.94
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	0.00
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	19.04
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00

Source: CnidoSite RNA-seq expression matrices (NVECT_TPM, StringTie quantification over 48 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.