Gene detail

Detailed information of CAB4021941.1 in Paramuricea clavata

Genomic Location: pcla8_s012228:11849...14060
NR annotation: CAB4021941.1, RING finger 151-like [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-PACLA_8A012256

CCCTGCCATTCAATGACGCAACTTTTTGCTATGGGGACCGTAACCTAAACCTAAAAGTTCccccgaccccccccccaaccttGGGATAGGTGCACAACCCTAGCGTCATTTAAATTTGGCTATACTTTTGTTTAAGGATTGGTAAACAAatgcaaaaaataaacaaaacattgCACAGTACAGTTTTTCAGAGATACAAATATTCTGTTGTTTGTGTCTAGCCGGAGAAATATACTACCATAGCTGGAACCCGAAGAAtccgaatgttctcatcaagactgTCACAAGTCATTTACAACATCCGCGtctgtgttgtatcggatatacaaactctgtATACAAATAATACCCAAAACTTTTCATGAAGAAACTTTTCAAGAAGCAACATTGGACCAAGTTACTGCATATTTACCGCAGGACTGTAAGGTCACGACCTCGCTTCAGTTTGGTCACGGTTTAGTACCACGGTATTTAGAAATTAGTATTACTGGACACTGACTTTGGTTTGTTCTGTGTTGTAACTCATAAATATCAAAGACATTCAACAATACTCTAAAACAATGTAGCTGCAGTTTCGTCATCTGAAGACTTGAACGGAAAATGGGAAAGCCATATTAAGAAAGACTGTCGTTCATCTCTGGTAAACAACAAATGGCGTCTTTTATGGCGGCATATCATGAAGCCCAACAGCAATATATGGTTTTGAAGAGGAAAGATTTGAACAAGCCGTCAGTCAGAACTTTCACTGCATTATCTGCACAAACGTTCTTCGAGATCCAGTTATGTGCCGTGAAAATCAACATCTATTCTGCCGTGCTTGTATAACCAGACATCTGACGAACTCTCAAACATGCCCGACATGTATGCAAAAGCTCAGAATCGATACGTTGACGCAAGCCCCTCGAGCCGTAACGAATTTTCTCTGTGAGTTGACGATTCGTTGCGACTTTTACGACCGAGGTTGCGTAGTCTTGATAGAGTTGGGAGATCTCGAGAATCATCTCAAGGAGTGCGGGTTTGCTCCTGTTGTCTGCTCCAACGCAGGATGCGAACTTGTAGTGAATCAACGAGATTTAGTTCATCACGAGTCAGCTGTATGCGAACAACGAAGGGTGAAGTGCCATAATTGCGCGGAGCTACAACAAGAGATGGATACAGTGAAGACTACGTTAGCAGAAATGAACAAGAAACTTGACGATATTCAGGACAAATTCGCAATTCAGAACAAATTCGAGAGCATGGAAAAGCAACAAGAAAAATTATCGAGGCATGAATTTGAAGACACGAAGTTCAAAGTGGTTGTAGCTGGAGGTTGGAATAAAGATTCCAGTCAGTTAAATTCCGTAGAACTGTTCGATTCATCAAGAAGAACATGGAGTTATCTACAACCGATGAAAGAATGTCGCAAGAGTGCATCAGCATTTGTTTACAACAACCAGATTATCGTTTCTGGTGGCTGGACCAAATCGAACCGTCGACCACTTCGAACCAATTCAATGGAAGCACTGCAGAATGCTAACCAAATTTCTCCGTTGTCAACCTGGAAAAATTTTCCTGCCAAACTCTCCGGAAAATTGTCAGGTTTCAGTACTGTTGTTTATAATGATAGTTTGATAGTCGTAGGAGGTATTACTGATGATTCCTACTCCGCGAATATCTCAGAAGTGTCTCTTGTTCACCCTTATACCATTAAAATGTTGACTAAAATGCCACGGAGTATGGGCTTGCATGCTGTTGAATTATTTGGTGATAAGATTGTAATTATAGGAGGACGTAAGACCCGATGCATTAATAATGTTCTTATGTATGATATTAAGAAAAATAAATGTGAAGAGTTAGCACCCTTGCCCTATCCAGTACAAAATGTGGCTACAGTGAAATGGGCTGATAATGTTATTGTAATTGGTGGGCAGGAAAGAGACTTTATGGCGTTAAACACTGTcataatttacaatattaagAGTCAGAAGAGCCACTGGTTACCTCCCATGATATACAAGAGATCAGCATGTACTGCAGCTGTCGTTGACAATACCATAATTGTTATGGGTGGAGAAGATGAGAAAGAAAACATTCTAAATTCTGTAGAAAGATTTAGTTTCACTCATTATACTTGGGAAGAACTGCCGTCTATGCACGAGGCAAGAAAAGCCTTTACCTCTGTTGCATGCTAATTTGATCTAAAATAACTTTATCCCAAAATATGTAGAGc

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O00463	TNF receptor-associated factor 5 OS=Homo sapiens OX=9606 GN=TRAF5 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000376 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01344 all species →	Kelch_1	Kelch motif	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR015915 all species →	Homologous_superfamily	Kelch-type beta propeller	Interproscan
IPR006652 all species →	Repeat	Kelch repeat type 1	Interproscan
IPR001293 all species →	Domain	Zinc finger, TRAF-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46344 all species →	OS02G0202900 PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion 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

No KEGG orthology assignment for CAB4021941.1.

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

Expression pattern (RNA-seq)

Transcript abundance of CAB4021941.1 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

16TPM > 0

4Conditions

25.6Max TPM

5.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	6	6.93	14.69
apical branchlet · Temperature treatment at T0	6	4	3.01	6.02
apical branchlet · Temperature treatment at T25	5	3	7.00	25.60
apical branchlet · Control at T0	4	3	6.64	15.95

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	14.69
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	14.54
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	5.63
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	3.55
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.59
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.58
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	6.02
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	4.66
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	3.84
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	3.54
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
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	25.60
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	7.57
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	1.81
SRR19977432	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
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	15.95
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	5.76
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	4.84
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.