Gene detail

Detailed information of CAB3999254.1 in Paramuricea clavata

Genomic Location: not available for this species
NR annotation: CAB3999254.1, tyrosine- phosphatase non-receptor type 23-like [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Sequence

No sequence record for CAB3999254.1 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
Q6PB44	Tyrosine-protein phosphatase non-receptor type 23 OS=Mus musculus OX=10090 GN=Ptpn23 PE=1 SV=2
O88902	Tyrosine-protein phosphatase non-receptor type 23 (Fragment) OS=Rattus norvegicus OX=10116 GN=Ptpn23 PE=1 SV=2
Q9H3S7	Tyrosine-protein phosphatase non-receptor type 23 OS=Homo sapiens OX=9606 GN=PTPN23 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003722 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13949 all species →	ALIX_LYPXL_bnd	ALIX V-shaped domain binding to HIV	Domain	Interproscan
PF00102 all species →	Y_phosphatase	Protein-tyrosine phosphatase	Domain	Interproscan
PF03097 all species →	BRO1	BRO1-like domain	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR004328 all species →	Domain	BRO1 domain	Interproscan
IPR000242 all species →	Domain	Tyrosine-specific protein phosphatase, PTPase domain	Interproscan
IPR029021 all species →	Homologous_superfamily	Protein-tyrosine phosphatase-like	Interproscan
IPR045251 all species →	Family	Vacuolar protein-sorting protein Bro1-like	Interproscan
IPR025304 all species →	Domain	ALIX V-shaped domain	Interproscan
IPR038499 all species →	Homologous_superfamily	BRO1 domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23030 all species →	PCD6 INTERACTING PROTEIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004725 all species →	Molecular Function	protein tyrosine phosphatase activity	Interproscan
GO:0006470 all species →	Biological Process	protein dephosphorylation	Interproscan
GO:0005768 all species →	Cellular Component	endosome	Interproscan
GO:0032456 all species →	Biological Process	endocytic recycling	Interproscan
GO:0043328 all species →	Biological Process	protein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	Interproscan
GO:0045022 all species →	Biological Process	early endosome to late endosome transport	Interproscan
GO:0071985 all species →	Biological Process	multivesicular body sorting pathway	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	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
K08840	TNIK; TRAF2 and NCK interacting kinase	EC:2.7.11.1	Protein kinases	ko01001	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of CAB3999254.1 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

11TPM > 0

4Conditions

21.9Max TPM

5.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	4	7.94	16.89
apical branchlet · Temperature treatment at T0	6	3	3.80	14.72
apical branchlet · Temperature treatment at T25	5	2	6.33	21.85
apical branchlet · Control at T0	4	2	2.16	6.90

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	16.89
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	14.44
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	10.81
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	5.49
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	14.72
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	4.83
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	3.25
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
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	21.85
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	9.79
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	6.90
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	1.74
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.