Gene detail

Detailed information of CAB4008866.1 in Paramuricea clavata

Genomic Location: not available for this species
NR annotation: CAB4008866.1, endoribonuclease Dicer-like, partial [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Sequence

No sequence record for CAB4008866.1 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
A0A8J1LLF7	Endoribonuclease Dicer-S OS=Xenopus laevis OX=8355 GN=dicer1.S PE=3 SV=1
Q8R418	Endoribonuclease Dicer OS=Mus musculus OX=10090 GN=Dicer1 PE=1 SV=3
A0A974H8H3	Endoribonuclease Dicer-L OS=Xenopus laevis OX=8355 GN=dicer1.L PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001530 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF20931 all species →	Dicer_platform	Dicer, platform domain	Domain	Interproscan
PF03368 all species →	Dicer_dimer	Dicer dimerisation domain	Domain	Interproscan
PF20932 all species →	Dicer_dsRBD	Dicer, dsRNA-binding domain	Domain	Interproscan
PF02170 all species →	PAZ	PAZ domain	Domain	Interproscan
PF20930 all species →	Dicer_PBD	Dicer, partner-binding domain	Domain	Interproscan
PF00271 all species →	Helicase_C	Helicase conserved C-terminal domain	Domain	Interproscan
PF00636 all species →	Ribonuclease_3	Ribonuclease III domain	Family	Interproscan
PF04851 all species →	ResIII	Type III restriction enzyme, res subunit	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000999 all species →	Domain	Ribonuclease III domain	Interproscan
IPR048512 all species →	Domain	Dicer, platform domain	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR036389 all species →	Homologous_superfamily	Ribonuclease III, endonuclease domain superfamily	Interproscan
IPR005034 all species →	Domain	Dicer dimerisation domain	Interproscan
IPR038248 all species →	Homologous_superfamily	Dicer dimerisation domain superfamily	Interproscan
IPR001650 all species →	Domain	Helicase, C-terminal domain-like	Interproscan
IPR044441 all species →	Domain	Dicer, double-stranded RNA-binding domain	Interproscan
IPR003100 all species →	Domain	PAZ domain	Interproscan
IPR036085 all species →	Homologous_superfamily	PAZ domain superfamily	Interproscan
IPR048513 all species →	Domain	Dicer, partner-binding domain	Interproscan
IPR014001 all species →	Domain	Helicase superfamily 1/2, ATP-binding domain	Interproscan
IPR006935 all species →	Domain	Helicase/UvrB, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14950 all species →	DICER-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004525 all species →	Molecular Function	ribonuclease III activity	Interproscan
GO:0006396 all species →	Biological Process	RNA processing	Interproscan
GO:0016891 all species →	Molecular Function	RNA endonuclease activity, producing 5'-phosphomonoesters	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0030422 all species →	Biological Process	siRNA processing	Interproscan
GO:0031054 all species →	Biological Process	pre-miRNA processing	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0016442 all species →	Cellular Component	RISC complex	Interproscan
GO:0090501 all species →	Biological Process	obsolete RNA phosphodiester bond hydrolysis	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0016787 all species →	Molecular Function	hydrolase 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K11592	DICER1, DCR1; endoribonuclease Dicer	EC:3.1.26.-	Chromosome and associated proteins	ko03036	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of CAB4008866.1 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

9TPM > 0

4Conditions

12.8Max TPM

2.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	4	4.78	11.59
apical branchlet · Temperature treatment at T0	6	2	1.12	4.89
apical branchlet · Temperature treatment at T25	5	2	3.11	12.84
apical branchlet · Control at T0	4	1	0.87	3.48

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	11.59
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	11.04
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	4.22
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	1.82
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
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	4.89
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.85
SRR19977426	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
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	12.84
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	2.71
SRR19977425	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	3.48
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.