Gene detail

Detailed information of CAB3976989.1 in Paramuricea clavata

Genomic Location: not available for this species
NR annotation: CAB3976989.1, collagen alpha-1(XI) chain isoform X1, partial [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Sequence

No sequence record for CAB3976989.1 in PCLAV (the gene ID may belong to a different isoform naming scheme). Try the gene search.

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P06684	Complement C5 OS=Mus musculus OX=10090 GN=C5 PE=1 SV=2
Q91132	Cobra venom factor OS=Naja kaouthia OX=8649 PE=1 SV=1
Q8IZJ3	C3 and PZP-like alpha-2-macroglobulin domain-containing protein 8 OS=Homo sapiens OX=9606 GN=CPAMD8 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000846 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01391 all species →	Collagen	Collagen triple helix repeat (20 copies)	Repeat	Interproscan
PF01410 all species →	COLFI	Fibrillar collagen C-terminal domain	Family	Interproscan
PF01835 all species →	MG2	MG2 domain	Domain	Interproscan
PF17790 all species →	MG1	Macroglobulin domain MG1	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000885 all species →	Domain	Fibrillar collagen, C-terminal	Interproscan
IPR008160 all species →	Repeat	Collagen triple helix repeat	Interproscan
IPR050938 all species →	Family	Collagen and Collagen-like Structural Proteins	Interproscan
IPR002890 all species →	Domain	Macroglobulin domain	Interproscan
IPR041425 all species →	Domain	Complement C3/4/5, macroglobulin domain MG1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR37456 all species →	SI:CH211-266K2.1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005201 all species →	Molecular Function	extracellular matrix structural constituent	Interproscan
GO:0004866 all species →	Molecular Function	endopeptidase inhibitor 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 CAB3976989.1.

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

Expression pattern (RNA-seq)

Transcript abundance of CAB3976989.1 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

17TPM > 0

4Conditions

54.8Max TPM

11.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	6	10.58	16.78
apical branchlet · Temperature treatment at T0	6	5	15.36	36.73
apical branchlet · Temperature treatment at T25	5	2	2.94	8.71
apical branchlet · Control at T0	4	4	20.05	54.83

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	16.78
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	14.19
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	12.11
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	12.06
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	7.04
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	1.30
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	36.73
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	36.11
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	11.04
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	6.49
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.79
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	8.71
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	6.01
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
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	54.83
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	14.42
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	7.87
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	3.08

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.