Gene detail

Detailed information of CAB3983714.1 in Paramuricea clavata

Genomic Location: not available for this species
NR annotation: CAB3983714.1, synaptic functional regulator FMR1-like isoform X1 [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Sequence

No sequence record for CAB3983714.1 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
P51113	Fragile X messenger ribonucleoprotein 1 homolog A OS=Xenopus laevis OX=8355 GN=fmr1-a PE=1 SV=1
Q6GLC9	Fragile X messenger ribonucleoprotein 1 homolog OS=Xenopus tropicalis OX=8364 GN=fmr1 PE=2 SV=1
Q2KHP9	Fragile X messenger ribonucleoprotein 1 homolog B OS=Xenopus laevis OX=8355 GN=fmr1-b PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006499 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05641 all species →	Agenet	Agenet domain	Domain	Interproscan
PF18336 all species →	Tudor_FRX1	Fragile X messenger ribonucleoprotein 1, Tudor domain	Domain	Interproscan
PF00013 all species →	KH_1	KH domain	Domain	Interproscan
PF17904 all species →	KH_9	FMRP KH0 domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036612 all species →	Homologous_superfamily	K Homology domain, type 1 superfamily	Interproscan
IPR004087 all species →	Domain	K Homology domain	Interproscan
IPR040148 all species →	Family	Fragile X messenger ribonucleoprotein 1	Interproscan
IPR008395 all species →	Domain	Agenet-like domain	Interproscan
IPR016197 all species →	Homologous_superfamily	Chromo-like domain superfamily	Interproscan
IPR041560 all species →	Domain	FMR1, tudor domain	Interproscan
IPR004088 all species →	Domain	K Homology domain, type 1	Interproscan
IPR040472 all species →	Domain	Synaptic functional regulator FMRP, KH0 domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10603 all species →	FRAGILE X MENTAL RETARDATION SYNDROME-RELATED PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
GO:0003730 all species →	Molecular Function	mRNA 3'-UTR binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005844 all species →	Cellular Component	obsolete polysome	Interproscan
GO:0006417 all species →	Biological Process	regulation of translation	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0017148 all species →	Biological Process	negative regulation of translation	Interproscan
GO:0036464 all species →	Cellular Component	cytoplasmic ribonucleoprotein granule	Interproscan
GO:0042803 all species →	Molecular Function	protein homodimerization activity	Interproscan
GO:0043488 all species →	Biological Process	regulation of mRNA stability	Interproscan
GO:0045182 all species →	Molecular Function	translation regulator activity	Interproscan
GO:0045727 all species →	Biological Process	positive regulation of translation	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
K15516	FMR; fragile X mental retardation protein	-	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 CAB3983714.1 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

37.8Max TPM

6.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	4	13.75	37.83
apical branchlet · Temperature treatment at T0	6	3	8.26	36.21
apical branchlet · Temperature treatment at T25	5	1	0.67	3.34
apical branchlet · Control at T0	4	1	1.60	6.41

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	37.83
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	21.34
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	16.73
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	6.59
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
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	36.21
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	9.98
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	3.35
SRR19977426	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
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	3.34
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	6.41
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.