Gene detail

Detailed information of CAB3996033.1 in Paramuricea clavata

Genomic Location: not available for this species
NR annotation: CAB3996033.1, Cleavage and polyadenylation specificity factor subunit 2 [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Sequence

No sequence record for CAB3996033.1 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
Q10568	Cleavage and polyadenylation specificity factor subunit 2 OS=Bos taurus OX=9913 GN=CPSF2 PE=1 SV=1
O35218	Cleavage and polyadenylation specificity factor subunit 2 OS=Mus musculus OX=10090 GN=Cpsf2 PE=1 SV=1
Q9P2I0	Cleavage and polyadenylation specificity factor subunit 2 OS=Homo sapiens OX=9606 GN=CPSF2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004914 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13299 all species →	CPSF100_C	Cleavage and polyadenylation factor 2 C-terminal	Family	Interproscan
PF10996 all species →	Beta-Casp	Beta-Casp domain	Domain	Interproscan
PF07521 all species →	RMMBL	Zn-dependent metallo-hydrolase RNA specificity domain	Motif	Interproscan
PF16661 all species →	Lactamase_B_6	Metallo-beta-lactamase superfamily domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR025069 all species →	Domain	Cleavage and polyadenylation specificity factor 2, C-terminal	Interproscan
IPR036866 all species →	Homologous_superfamily	Ribonuclease Z/Hydroxyacylglutathione hydrolase-like	Interproscan
IPR022712 all species →	Domain	Beta-Casp domain	Interproscan
IPR011108 all species →	Domain	Zn-dependent metallo-hydrolase, RNA specificity domain	Interproscan
IPR035639 all species →	Domain	CPSF2, metallo-hydrolase domain	Interproscan
IPR001279 all species →	Domain	Metallo-beta-lactamase	Interproscan
IPR027075 all species →	Family	Cleavage and polyadenylation specificity factor subunit 2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45922 all species →	CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR SUBUNIT 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0005847 all species →	Cellular Component	mRNA cleavage and polyadenylation specificity factor complex	Interproscan
GO:0006378 all species →	Biological Process	obsolete mRNA polyadenylation	Interproscan
GO:0006398 all species →	Biological Process	mRNA 3'-end processing by stem-loop binding and cleavage	Interproscan
GO:0098789 all species →	Biological Process	obsolete pre-mRNA cleavage required for polyadenylation	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
K14402	CPSF2, CFT2; cleavage and polyadenylation specificity factor subunit 2	-	Messenger RNA biogenesis	ko03019	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of CAB3996033.1 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

21TPM > 0

4Conditions

28.7Max TPM

10.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	6	9.93	28.66
apical branchlet · Temperature treatment at T0	6	6	12.37	26.76
apical branchlet · Temperature treatment at T25	5	5	8.16	12.01
apical branchlet · Control at T0	4	4	8.81	12.38

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	28.66
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	12.18
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	9.79
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	6.97
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	1.01
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.95
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	26.76
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	15.52
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	13.69
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	12.53
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	3.91
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.80
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	12.01
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	11.59
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	8.61
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	7.37
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	1.20
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	12.38
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	10.75
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	10.74
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	1.35

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.