Gene detail

Detailed information of CAB3978535.1 in Paramuricea clavata

Genomic Location: not available for this species
NR annotation: CAB3978535.1, nucleolar 56-like [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Sequence

No sequence record for CAB3978535.1 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
Q9D6Z1	Nucleolar protein 56 OS=Mus musculus OX=10090 GN=Nop56 PE=1 SV=2
Q3SZ63	Nucleolar protein 56 OS=Bos taurus OX=9913 GN=NOP56 PE=2 SV=1
O00567	Nucleolar protein 56 OS=Homo sapiens OX=9606 GN=NOP56 PE=1 SV=4

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002002 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08156 all species →	NOP5NT	NOP5NT (NUC127) domain	Domain	Interproscan
PF01798 all species →	Nop	snoRNA binding domain, fibrillarin	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002687 all species →	Domain	Nop domain	Interproscan
IPR042239 all species →	Homologous_superfamily	Nop, C-terminal domain	Interproscan
IPR012974 all species →	Domain	Nucleolar protein 58/56, N-terminal	Interproscan
IPR036070 all species →	Homologous_superfamily	Nop domain superfamily	Interproscan
IPR045056 all species →	Family	Nucleolar protein Nop56/Nop58	Interproscan
IPR012976 all species →	Domain	NOSIC	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10894 all species →	NUCLEOLAR PROTEIN 5 NUCLEOLAR PROTEIN NOP5 NOP58	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0030515 all species →	Molecular Function	snoRNA binding	Interproscan
GO:0031428 all species →	Cellular Component	box C/D methylation guide snoRNP complex	Interproscan
GO:0032040 all species →	Cellular Component	small-subunit processome	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
K14564	NOP56; nucleolar protein 56	-	Ribosome biogenesis	ko03009	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of CAB3978535.1 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

26.0Max TPM

5.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	6	7.89	26.04
apical branchlet · Temperature treatment at T0	6	6	3.77	10.76
apical branchlet · Temperature treatment at T25	5	5	5.33	15.95
apical branchlet · Control at T0	4	4	4.06	6.44

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	26.04
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	13.51
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	3.55
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.51
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.89
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.81
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	10.76
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	5.90
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	2.05
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.84
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.49
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.56
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	15.95
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	5.31
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	3.56
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	1.28
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.56
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	6.44
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	5.87
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	2.29
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	1.64

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.