Gene detail

Detailed information of CAB4013111.1 in Paramuricea clavata

Genomic Location: not available for this species
NR annotation: CAB4013111.1, polyribonucleotide 5 -hydroxyl-kinase Clp1 [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Sequence

No sequence record for CAB4013111.1 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
A7RG82	Protein CLP1 homolog OS=Nematostella vectensis OX=45351 GN=v1g236308 PE=3 SV=1
Q5ZJL4	Polyribonucleotide 5'-hydroxyl-kinase Clp1 OS=Gallus gallus OX=9031 GN=CLP1 PE=2 SV=2
A2VE01	Polyribonucleotide 5'-hydroxyl-kinase Clp1 OS=Bos taurus OX=9913 GN=CLP1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004210 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16575 all species →	CLP1_P	mRNA cleavage and polyadenylation factor CLP1 P-loop	Domain	Interproscan
PF06807 all species →	Clp1	Pre-mRNA cleavage complex II protein Clp1	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR038238 all species →	Homologous_superfamily	Clp1, C-terminal domain superfamily	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR032319 all species →	Domain	Polyribonucleotide 5'-hydroxyl-kinase Clp1, P-loop domain	Interproscan
IPR010655 all species →	Domain	Pre-mRNA cleavage complex subunit Clp1, C-terminal	Interproscan
IPR045116 all species →	Family	Polyribonucleotide 5-hydroxyl-kinase Clp1/Grc3	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12755 all species →	CLEAVAGE/POLYADENYLATION FACTOR IA SUBUNIT CLP1P	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0031124 all species →	Biological Process	mRNA 3'-end processing	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006378 all species →	Biological Process	obsolete mRNA polyadenylation	Interproscan
GO:0006388 all species →	Biological Process	tRNA splicing, via endonucleolytic cleavage and ligation	Interproscan
GO:0006396 all species →	Biological Process	RNA processing	Interproscan
GO:0051731 all species →	Molecular Function	polynucleotide 5'-hydroxyl-kinase 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 CAB4013111.1.

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

Expression pattern (RNA-seq)

Transcript abundance of CAB4013111.1 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

10TPM > 0

4Conditions

36.7Max TPM

5.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	4	8.01	19.60
apical branchlet · Temperature treatment at T0	6	4	9.20	36.70
apical branchlet · Temperature treatment at T25	5	1	0.79	3.93
apical branchlet · Control at T0	4	1	1.46	5.85

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	19.60
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	18.96
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	5.26
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	4.22
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
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	36.70
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	12.65
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	4.18
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.64
SRR19977426	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
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	3.93
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	5.85
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.