Gene detail

Detailed information of CAB4010376.1 in Paramuricea clavata

Genomic Location: pcla8_s006932:5406...8512
NR annotation: CAB4010376.1, cyclin-dependent kinase 5 activator 1 isoform X1 [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-PACLA_8A072778

ATTTGATCTAGTCCATGAAAATTTCAcacaaaatttaatttgtgtTATGataattatatgttaatctACTCGGTTGAATATCAATTGCATTTCCATAGCTACAAGGCGATTATTGTTACATGCTGTGTATGGCAAACAATGCGCGTGGGATGTGATGTCATCAGCCATACATGGGGATGTATATAAGCATGACAAACACAAGTGACCAGTAATAAACACAGACTCCTAGCGCTGAGAAGAGCTAAAGAACTTCAAATATTAAAGTTGTGTAGAaagttttaaaagttattttagaGAGATGGGTTCAAATCATTCATTGAATCGTAAGGAAATCTTACAAGAATACGGAGTTGTGAACCATGCCAATAATAAAGAGAAGAATAATAATACGAGCAGCGTTCCTACTCTTATAGACTCTATGGGAAAGGAGAATGTTATTCTATCGAACCACGACGTGCAACTGGCGACGGCGTACCTTCATAAATACGCTCATGTTAGTAAGCGAAGAATGAAAACTATCTTTATGCCAACTGCGACGAAAAATACGAACAGTACGAACGAGAATAAAACTTTAAAACCCGCTCAAGCGAACTCGGCTATCATACCCGCAACAACATTAAACAACACCCATAAAACGAAGACGCAGAATATCTCAAATGCGAAGGCGGCGTTGACCTCTTCCCATTTCACGATGAAATGTCTTGGAACTTTTGTATGCGCTCGATATTTACGAATGTTGCCGCACTTATCCATCAACGATGTCATTACGTGGCTAAAGAGTGTCGACCGTGCACTGACCCTATCAGGATGGCAAGATCATGCCTTTCTTACCACTCCCAATATAACATTTATCTACATGTTAGCGAGAGACTCTTTGCCTGAAAACGTACAGTCTATGAACCAACTGAAATCTGAACTATTAACAATACTCTACATGGCCTACACCTATAGCGGTCCAGAGATTAGCTACCCTTTAAAACCTTTCCTTTGCGACAAAAATCGCGCGGAGTTTTGGACCCGTTGCGTTTGGATCACTAACAACCTTAGCGGTGATATGTTGAAAATCCATAAAGACAGTCAGTTTTACGAAGAAGTTCAAATCGAATTGGCAACCTATGGCTGTTTGTTCCAAAGATCGAAGAGAACTTGAAATGGGTACTTGACTTTGAAGGATGAAGTCGGACCAGGCCGACCAGCCACCGCCACGAGATGTCAGATGGCATTTGGAGTCACACAAATGAACCATGCAGTGTATCAAAAGTAAATGACGGTTGAAAATCCACGAACTTTCCCGATAAAATAGCTTTGACAGCTATATAGATTGCCACATGAGTTAATCCGAGTAGCTCAAGGCAAGCTAGTATAGTGAACACTATAAAATTGACATGTCAGAACATTTATAAAGGTGACTTGAATCGTCTCACGCACGAAAATCAGTACCTTTCATTAGTATGCTGACAAATGAGatagaaaatataattttttactaATAAGCAAATAGATAGGGAAATATAAACATTCACAAATATCCTGTGTATATATTAAGAAATTTGTTCATTCTAAtgtctatatatttatacaaaaatataaaaaattattaaggGATTAATTTATTGAAATTGTAAAGCTGGCATCTGTGAATCCAGGGTAAAAACATCACAGtcgaagaaaaataaaatgaaaaatgttcaaaacaatCCAACGCGTTGTTTTCCTGTTTGATATAGCTCCAGGGTCTGCGTGTCTCGACAGCTGTCcaattatataaaattataaggTTTAAATATTTTAGAGATTCCGTCCTCCGCAGCCGGTATGCGTCCGCTTGCGTGCGTTCTCAGTAATCCGACGAATGGCGCAAAGCCAAAAGCACGCATGATTATAAtccgtattctgtgatattAATCATAACAATCAAAAGTTCAAAACATAAAGTTAAAATGAACAAATAACTCTCAGAAAGAGTtgtctgaaaatcaccaaacaGCTGTGAAGTATATTATAAATTCAATGATTCCCTATCTTCGGGTCAAATTGTTTTATCTTTAGTCAGATTTAATGGCCGATTATCCTATCCCGGCAGTACAAACCGCTTATACGCGTGCTCAAATGCTCATATTAAAAATCTCACAAGGTCTCCAGCTGCTTTGCGACCGCAAGGGTCAACGCTAAAATAGAACTGGTGTGAATATATATAGCTTGGCAATCTTTTGTGACTATTTCTGCCCAGAGCAAGATATTTTAGGTGACAGTATGTGTCAGATGCAACAATAGGTATACATTCGGCCTAAAATAGCTAGAGACGCGCAAAAGCAAGATCGAAGTCTTGTTGTTTTGCATAAACGTCGTCTCACATCTGTTTGCATTGAGTATGCCTTTATTCATTTATGAGAAACATCATTAATCAAACATACAGCAGTGGCATAATGCCACAAAGAATAAAGAGGTTCTTACAACGTGACCCATTAAAGGAATAATGAATGTGCGTATTCAGACGTCGCAAAGACTTATGTATAATTTTCCTCTTATGAACTAATGCTCTGCCGACATGCAAGCGATATAATGTAGTCACCTACTGAATACTTGCTGCACAGTAGCAAATATATAACTCATATAACAAAACCAAAGGCAAGGATCGAATTGTTACATGAACATGTTCATGATCATGTTCTTGTGCGGTTATTTCTCATGCATTGGAAGCAACAAACGTTATAGTTATTATAGTTAATAAACTTCAAGGACTTTCGAATATGTTTAGGTTTTGAGAGCACTGAAAAAATGAGTTTTGAACGTTGTACTTGTATAAACAGTCTAACTTATATGTGGAATGTTCAATGAAGACGAGTCGCAGTTACGAGACCAAACTGGGATTCGAATCCAAGCTCCAAGGCTCGATTGTGTCACAAACGGCGTCcgtttgtgattggttgaatttAGTAATCATAGACAACTACAGATTCGCCAGTTTCGATTCACAAGCACTGCTTAACAGAATAGactgaaaataataaagtttgctGATTTTGGCAGGCATAGTTTCGGCAATATGAGTAAATTGGAAGAAAATTGCATGCTTTGTATCACATTTCTTCAGCAGGGGCCAGGgg

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q13319	Cyclin-dependent kinase 5 activator 2 OS=Homo sapiens OX=9606 GN=CDK5R2 PE=1 SV=1
O35926	Cyclin-dependent kinase 5 activator 2 OS=Mus musculus OX=10090 GN=Cdk5r2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009469 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03261 all species →	CDK5_activator	Cyclin-dependent kinase 5 activator protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR004944 all species →	Family	Cyclin-dependent kinase 5 activator	Interproscan
IPR036915 all species →	Homologous_superfamily	Cyclin-like superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23401 all species →	CYCLIN DEPENDANT KINASE-5 ACTIVATOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0007411 all species →	Biological Process	axon guidance	Interproscan
GO:0016533 all species →	Cellular Component	protein kinase 5 complex	Interproscan
GO:0019901 all species →	Molecular Function	protein kinase binding	Interproscan
GO:0030426 all species →	Cellular Component	growth cone	Interproscan
GO:0061575 all species →	Molecular Function	cyclin-dependent protein serine/threonine kinase activator activity	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 CAB4010376.1.

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

Expression pattern (RNA-seq)

Transcript abundance of CAB4010376.1 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

19TPM > 0

4Conditions

345.5Max TPM

38.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	6	27.13	55.96
apical branchlet · Temperature treatment at T0	6	5	10.93	25.45
apical branchlet · Temperature treatment at T25	5	4	103.53	345.48
apical branchlet · Control at T0	4	4	16.39	23.31

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	55.96
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	29.57
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	28.35
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	21.02
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	16.88
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	11.00
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	25.45
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	12.86
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	10.57
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	10.22
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	6.46
SRR19977426	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	345.48
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	86.57
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	44.01
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	41.62
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	23.31
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	20.07
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	18.14
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	4.03

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.