Gene detail

Detailed information of CAB4003115.1 in Paramuricea clavata

Genomic Location: not available for this species
NR annotation: CAB4003115.1, nuclear pore complex Nup98-Nup96 isoform X1, partial [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Sequence

No sequence record for CAB4003115.1 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
P49793	Nuclear pore complex protein Nup98-Nup96 OS=Rattus norvegicus OX=10116 GN=Nup98 PE=1 SV=2
Q6PFD9	Nuclear pore complex protein Nup98-Nup96 OS=Mus musculus OX=10090 GN=Nup98 PE=1 SV=2
P52948	Nuclear pore complex protein Nup98-Nup96 OS=Homo sapiens OX=9606 GN=NUP98 PE=1 SV=4

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002191 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF21240 all species →	Nup98_GLEBS	Nup98, Gle2-binding sequence	Domain	Interproscan
PF13634 all species →	Nucleoporin_FG	Nucleoporin FG repeat region	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR025574 all species →	Repeat	Nucleoporin FG repeat	Interproscan
IPR037665 all species →	Family	Nucleoporin peptidase S59-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23198 all species →	NUCLEOPORIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000973 all species →	Biological Process	post-transcriptional tethering of RNA polymerase II gene DNA at nuclear periphery	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0005643 all species →	Cellular Component	nuclear pore	Interproscan
GO:0006405 all species →	Biological Process	RNA export from nucleus	Interproscan
GO:0006606 all species →	Biological Process	protein import into nucleus	Interproscan
GO:0008139 all species →	Molecular Function	nuclear localization sequence binding	Interproscan
GO:0017056 all species →	Molecular Function	structural constituent of nuclear pore	Interproscan
GO:0034398 all species →	Biological Process	telomere tethering at nuclear periphery	Interproscan
GO:0044614 all species →	Cellular Component	nuclear pore cytoplasmic filaments	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 CAB4003115.1.

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

Expression pattern (RNA-seq)

Transcript abundance of CAB4003115.1 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

9.6Max TPM

2.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	4	2.78	9.62
apical branchlet · Temperature treatment at T0	6	3	2.82	6.19
apical branchlet · Temperature treatment at T25	5	2	2.11	5.74
apical branchlet · Control at T0	4	1	1.61	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
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	9.62
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.87
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.21
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	1.98
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
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	6.19
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	5.71
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	4.99
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
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	5.74
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	4.79
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	6.44
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.