Gene detail

Detailed information of XP_068759028.1 in Montipora capricornis

Genomic Location: chr7:31850356...31878796
NR annotation: XP_029192941.2, GRAM domain-containing protein 4-like isoform X1 [Acropora millepora]
Species Montipora capricornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_068902927.1

ACACTTGCACGCCTGAGAAGAGCCGTGTGACCTTGATAAGTTTCCAAGTTATGTAAgagaaatttcaattttttgggcTCGGTAAAGCTTCATGCAAACGCTGATGGTACATGCTGGATGAAAGGTCTGTTATTAAAGACGCTCAAGACCAAAGATACATTGATGGAAGAGAAttctaaaagaaaaaggaaatggAACAGCGAGCTTAAAGACAAGATCAAACCCAAGCAAAGGTCTTCCACATCCAACCATCAAAGACGACATTCAAGTCCACCGGACCTCAGAAATGGCCAGCTTGTGGATAAAGACAGCTTAGAACGAAGGGAAGACACTTGGAAGGACGTTCGAAAAGATGACGATTTTCGTATGATGGCCATTGACGCAAACGGCAATTTTGTCGAAGAAGACGAGGACAGATGGAGAACTTCGGACGATATCACTGATCGAATGCAACCTCCAACACATGGATGCAGGGAAGAAACCATCTCTTCGTTTTCCGTTGACGACCAACTTCGAGTGCAAAAATTGAAGACAGCTCTGGACTCGTGGAAGGTGCAAATAACAGATACGGTTCTGGACAGACTGAGGGATTTCATCAACGATGAATCAGAGGCTACAGATGACGCGTATATCGAGGGGGAACCCTTGGCCGTGAAAACGTTAAAGGAAAATATCAACCGCTTCACTGCAGGTATCAAACCCATAACGGGTTTCATCAAGTCAGTTagaaacattttctcctggtcAAATCCAGCTGCGTCTTTCTTAATATTTGTGGTGTATATGTATTCTGTCTGGCATGGATATCTCCTTTCCTTGGTCCTTTTCATGGCGATATTGCAGCTTTTCTTGAATTATCTTCAAGCTAAAGGCATCAAAAAGCGACTAGGATTCACTGAAACAGCAAGAGAGGAGACTACATCTTCCGAGGATTACAGCTGGTCGGACAAATTTCAGCTGGTCTTACAAGTAGCAAGGAAAGTACAGAACACACTTGGAAAAATGGCCGACTCactggaaaaaatgaaaagTTTGTTAAACTGGCATCACCCTGAGGCTACGGGAAGATTGTTCATTGCTTTGTGCATTGCACTGGTTGCATCGTTGCTGCTCAAAGGACCAACATTATTCATGCTTATAGGACTGTTTTTGGGAATCAAATTCTTTGTTATCAACCAGATTTACAATCGGTTTCCAAAGGTGAAGAAGCGATACGATGGAACTGCCAAACTATGGAGGGAGCTGCCAACAGATGCTGAATTGGTAGCCAGGCAGAATGAAGCTGACACTAATCACGAGAAGCTTTCACGAACGCCCTCTGCGAGTTCCTTGTCATCGCTTAGTACCAACAGCTCTTCAGAGCAGATTTCAGGCGCCACTACAAACCATTTCTCAGAGAAATTCAACTTACCATCAAGCGAGACCTCCTTACCAGGTTGGGAAGACGGCAAAAAGTGTACTTTGTTGAACAAGGAAAAATCGTTCTCGAACGTTAAGCAAGGAAGGCTCTTTCTATCTCAAAGCTATTTGTGTTTTGAGAAGACCAAGTCATCAAGCGCGAAAACTCTCGTCATTCGACTGGATACAATAACAAGGATTAGCAAGGCCAAGTCAAGTGGAATAATGCCTGGAACGGGAACGGCGCTAGAAGTGCATGTGCGAGGAGTGGACAAGTCTTACATTTTTGGTGGGATCATTGGAAGAGATGACGTCCTTGAAAATATCACACTCCAAATGTAACAGTAAATGTAACAGCAAGACTAGTATTGTTTCCGTAGAATtgctttaaatgtgaatgcCTTAGTGAATATAGAGATGCGTATGCCTTAATCGTTCAATAATAACGTCATATTTTGCCTCAATGCAAGCTACTATAACACAGCCTCGAACCAAGGTTGTTTCTCTTTACTTCCTTTGTCGAGACGATACTGGGGTCGAGACTCTTTATCTAAAATGGCCACCAGCCATCCTCGAAATAACATTTGCATCTTTCTTTAAAGAAAAATCACTTATCCTAGTAATGACTGAAATAACTTTAACAAATTACTGAAAGCAATTCAAGGATAAACACCGCGCCCTTGGaaaaatttgtttatttgttaaatttacaCAAGGTCTTATTTGAAAACCACTTGTTCATTCGTTTTTGCTGGTCGAAAACGGACTGCTTGTGGAAAACtcaaagcaaaaccaatcatattgaagTGCACTTTTACCTTTTCGTCCAAAATCTTTTGATTTCTCGTTTGTGCTGGTCAAAAACGAGAGAACCAAAAACTTTATCGTTTAATCTTCTATGTTTAGTGATCGAAAGAACTTTTTCTTTCGAGGAATATTTACAGTGGCCATTTAAAGCGAAGGAGCAAAACGACTGCATTTTTAAATGTATTgtaagc

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
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
A2RV80	GRAM domain-containing protein 4 OS=Xenopus laevis OX=8355 GN=gramd4 PE=2 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

InterPro

InterPro term	Type	Description	Source
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR037847 all species →	Family	GRAM domain-containing protein 4	Interproscan
IPR004182 all species →	Domain	GRAM domain	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_068759028.1 across 36 RNA-seq samples of Montipora capricornis. 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.

36Samples

27TPM > 0

1Conditions

90.2Max TPM

17.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	27	17.09	90.16

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR27940191	Polyps	Polyps	not recorded	not recorded	SRP199550	90.16
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550	89.87
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550	50.04
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550	42.58
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550	38.22
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550	37.05
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550	36.53
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550	33.99
SRR27940192	Polyps	Polyps	not recorded	not recorded	SRP199550	33.64
SRR12959230	Polyps	Polyps	E3 day3	not recorded	SRP199550	26.87
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550	25.21
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550	24.21
SRR12959227	Polyps	Polyps	E3 day3	not recorded	SRP199550	23.57
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550	22.44
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550	8.80
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550	8.49
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550	5.69
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550	4.22
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550	4.13
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550	3.69
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550	3.25
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550	0.88
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550	0.74
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550	0.43
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550	0.16
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550	0.14
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550	0.09
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550	0.00
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550	0.00
SRR12807381	Polyps	Polyps	OA3 day0	not recorded	SRP199550	0.00
SRR12849113	Polyps	Polyps	OA3 day0	not recorded	SRP199550	0.00
SRR12927880	Polyps	Polyps	E3 day0	not recorded	SRP199550	0.00
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550	0.00
SRR12963484	Polyps	Polyps	E3 day0	not recorded	SRP199550	0.00
SRR9129316	Polyps	Polyps	not recorded	not recorded	SRP199550	0.00
SRR9613519	Polyps	Polyps	not recorded	not recorded	SRP199550	0.00

Source: CnidoSite RNA-seq expression matrices (MCAPR_TPM, StringTie quantification over 36 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.