Gene detail

Detailed information of CAB3984695.1 in Paramuricea clavata

Genomic Location: pcla8_s000799:54665...56902
NR annotation: CAB3984695.1, gremlin-2 isoform X2 [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-PACLA_8A077848

ATTTCTTGGTTGGTTCAAAGAAACATTTTCTTACGAGAAGGTATGTATATGATTTTAGGATAATTTTACTTATAATTCGTTAATGATAACAGATCATTATATGGGGGTGATTTATCATGAAAAATGCATGGTTAGAAAGTACTTAAACGGTTTCGACATGTGATATGATTTATTGTTTGATAACTCTGTGGAAAACTGACaatgtgtataaatatgaaaagtgttcagcCAATTGAACGTCTTCTCCTGTGGCAGACATTAACCCACGCAGACAAATAAAGTTTTCTTGTGAACAGTCAACAAGTCTTCCTTCACAAATTCCGTTGATAATTTTACTTGACTCTTCTTGTTTCCCAAAATATAATTGATGTATAAACTAGGTTTCTTAAGCCCGAGTGAAAATTGGTTTCTTAATGGTTTAAAGGCATTTAATTTGCAACGCCGCAGGTATGAATTTCAACGGAACTGCTGGCGTTTTCCCAACCGCACTCCAAAGTTTGACTtcaaaatttaatataattccACTCTTTTACTCTGGCACAACGTTCTGACAATGTTGGAGAGCTTTAAATTTGATTACAAGTACAACTGTACAAATATAGAAGTGGACGGACTCGTCAATTGCGCGCTAATCACGCCATATTTCGCTGTTTCCAACGTCACGGTGTAGACGGTAGCGATAAAACAATTTAGAAAATTAGCATATGCGCGCACGTGAAAAACATATGTCGCGCAATATTTTAATATCTTACTTTGTCAGTTCAAATCTAGTTCATCGCGAACGCGACAGGGTTGGAGAAGTCTCAATGAAAACTCACGCGTCTTTGGTGAACTATTGACTTTGAATCAAATTTATTTTTCAGAGCAATTGTTAGACAAATGAATATAGGTGCTAATTGAGTGATCTACAACTCCTCCAAATCTATGTTCTACGTTCAAACGTGGGAGTCCAATGTCACAATGTGCATTATTAAAATTCTACATTAAACTGCTGCATTTTATGTATGAAGAAATTCTGACACAACCGCGGCAGCTGATGTGCTCCTCAATAAAAGAAAAAGCCAAAATGCTCTATTAactgatattattatttatttaacacGTCCGTGTTACCCGAAAATTGGTATGACTAATTTTGACGGTATTTTGCATCAAAGCACTCGTGTAAGGAAACAAAAGAGTTTTATGTTTTGTcacatgtgttgaagattacacCCAACCCCGTGTTGTTAACTAACATTCCTTGGTTAACTTAGTTTTTATATGATAATCCTTTTCCAGATACAAGATggcaaaaatattaataattttcctTATATTACATCTATTGGTTGACCTCGTTACCATGGTACCGCTGATGTCACCACAAGATGTCCTGCGCGAGAGTCACGAGAAGGCGCCCACGCTATTCGTGATGAAGAAAACGCAACTGAAACACGACTGGTGCAAAACACGCGTTCTACAACAAGTCGTGAAGAGCGACGGATGCCGGCCATTACAAGTGCACAACAACTACTGCTACGGTCAGTGTAACTCCGTGTACATCCCTCTGTCAGGAGATACGAGTTCTTTCGAGTCTTGCGCAGTCTGTACACCCATGCTGGCGTACTACAAAGTTGTCACATTAAAGTGCCCCAGGAAAATTGTCAAATTCAAGCGAAagagaattcaatatattaaaCGATGTCGTTGCACTGCTGCTGAACTCACAGCTCTAAATACTTATGAAAATCCATAAAGGACGCTAGCTCTCCTCTAAAATAAAGTGCTATAGCCTTGCATATAGCAATGTAACAGACTATAATAGTTGTGTAGTACGCATGAGCAATGGTAGCAATAGTTGAAGTGCAGCCACTAACCTTTAAGGACTTTAAGAACTAAAACTGAGAACTTTAAGGGATGACATAAATTACTGGTTGCCCAGTATTTTACATTGTAACCTTATATTACATCAATActaaatatacaatacaataatacTTATTAAACTAAAATGTCTGTGTGATATAAGTGTTCGCAGTTCTTAATaaggtattttaattaaatgtttttcatGATTACATAAACTATTTTTGGTGGTGATGTCAGGACTATAAGTTGCTTCCAAAGTTGGGCTCCGCTGACATAAAAAAGAATGAAAGCCACACTTTGTGCAGATCTTGGCACCACCTATTATGGTATTCCTGGCAAATGTAATATTTCAGTTAATATCCtaagaaaaaatgtaatataTGTTTG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O73754	Gremlin-1 OS=Xenopus laevis OX=8355 GN=grem1 PE=2 SV=1
Q9H772	Gremlin-2 OS=Homo sapiens OX=9606 GN=GREM2 PE=1 SV=1
O88273	Gremlin-2 OS=Mus musculus OX=10090 GN=Grem2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001038 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03045 all species →	DAN	DAN domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006207 all species →	Domain	Cystine knot, C-terminal	Interproscan
IPR029034 all species →	Homologous_superfamily	Cystine-knot cytokine	Interproscan
IPR004133 all species →	Domain	DAN	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15283 all species →	GREMLIN 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005615 all species →	Cellular Component	extracellular space	Interproscan
GO:0009887 all species →	Biological Process	animal organ morphogenesis	Interproscan
GO:0036122 all species →	Molecular Function	BMP binding	Interproscan
GO:0038098 all species →	Biological Process	sequestering of BMP from receptor via BMP binding	Interproscan
GO:0048018 all species →	Molecular Function	receptor ligand activity	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

No KEGG orthology assignment for CAB3984695.1.

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

Expression pattern (RNA-seq)

Transcript abundance of CAB3984695.1 across 21 RNA-seq samples of Paramuricea clavata. 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.

21Samples

2TPM > 0

4Conditions

0.9Max TPM

0.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	0	0.00	0.00
apical branchlet · Temperature treatment at T0	6	0	0.00	0.00
apical branchlet · Temperature treatment at T25	5	1	0.18	0.89
apical branchlet · Control at T0	4	1	0.17	0.67

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.89
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.67
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00

Source: CnidoSite RNA-seq expression matrices (PCLAV_TPM, StringTie quantification over 21 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.