Gene detail

Detailed information of CAB4009698.1 in Paramuricea clavata

Genomic Location: pcla8_s006702:458...4057
NR annotation: CAB4009698.1, tetratricopeptide repeat, partial [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

PACLA_8A016275

Transcript

rna-PACLA_8A016275

ATGACTAATCACTTTCAACTGGCAATTGAACACTACGAGAAAGCTTTGGAAATTGCAAAGGAGCATGAGTATAGTCAACAGAAATCAATGGCATTAGTTGGGTTAGGACATGCGCATAGAGAGGAAAATCAGTTTGAAACAGCAATTGAACACTATGAAAAAGCTTTGGAAATCGCAAAGGAGTATCAACACAAACAACAGGAAACACAGGGATTACTTGGGTTAGGATATGTGTATGGAGAGAACTATCAGTTTGAAATGGCTATTGAACAGTATGAGAAAGCTTGGGAAATTGCAAAGGATCATGAGTTTAAACAACAGGAAACACAGGCATTAGTTGGGTTGGGAGATGCGTATAGAGGGagcaatcagtttcaaaaggcAATTGAACACTACGAGAAAGCTTTGGAAATTGGAAGAAAGCGTGGATTTGAAGATCAATACAAAGAAACACAGATATTGCTTGGGTTAGGAGATGCACATAGCGGGAACGatcagtttcaaacggcaactGAACACTATGAGAAAGCCTTGGAAATTACGGAGGAGCATGGATATAAACAAGTGGAAATAGTGGCATTAATTAGGTTAGGAGGTGTCTGCAGAGGGAACAATCAGTTTGAAACAGCAATTGAACACTATAAGAAAGCTTTGGAATTTGCAAAGGAGTATGAATATAAACATCTGGAAACACTGGCATTAGTTGAGCTAGGATGTGCGTATAGAAGGAACAATCAGTTTGAAACAGCAATTGAACACTACGAGAACGCTGTGGAAATTGCAAGGCCACATAAATATAAACAACGGGAAACAGAAGCATTAGTTGGATTAGGACATACGTATAGAATTCAGAATTTGTTTCAAGAGGCTATTGAAAACTATAAGAAAGCTATAAAAATTGCAAAGGAGCATGAGTATAAACAACAGGAAACGGAGGCATTTGTTGGTTTAGGAGATGCGTATAGAATGAGCTATCAGTTTCAAATGGCAATTGAACACTATGAGAAGGCTTTGCAAATTGCAAGGCCACATGAGTATAAACAACGGGAAACAGAGGCATTAGTTGGATTAGGAGATACGTATAGAGTTAAGAATCAATTTCAAAAGGCGATTGAACATTACAAGAAAGCTTTGAAAATTGCAAAAGAGCATGGATATAATCAACAGGAAAGGCAGGCATTAGTTTGGTTAGGACATACTTATAGAGagaacaatcagtttcaaacggcaattgaACACTATGAGGAAGCTTTGGAAATTGCAAAGAAGCCTGAACCGCATGATAAATACCAAGAAACACAGGTATTACTTGGGTTAGGAGATGCGTATGATGGGAACAATCAGCTTCACAAGGCTATTGAACATTATAAGAATGCAttgaaaattgcaaacgatCATGAATATTTCCAACAGGAAGCAGAGGCATTTGTTCAGTTAGGAGATGCTTATAGAGAAAACGATCAGTTTCAAATGGCAATTGAACACTataagaaagcttttgaaattgcAATGAAGCATGAATATAAACAACTGGAAACAGAGGCTTTAGTTGGGTTAGGAGATGCGTATAGAATGAACAgtcagtttcaaacggcaattaaacACTATGAAAAAGCTCTGGAAATTGCAATGCGACATGAATATAGACAACAGGAAGCAGAGGCATTAGTTGGGTTAGGAGATGCATATAGAGTGAACAATCAGGTTGAAACGGCCGTTAAATACTATGAGAAAGGTTTGGAAATCGTAAAGAAGTATGAATACAAACAACAGGAAGCAGACGTATTAGTTCAATTAGGGGATGCTTATCGAGCGAATAATAAATTTCAAGCAGCAGTTGAACACTATAATAAAGCTTTGCAAATTGGAAAGAAGCATGGATATAAGCGACAGGAAAGACGGGCATTACTTGGGTTAGGGGAGGCTTTTAGAGagaacaatcagtttcaaacggTAACTGAACACTTTAAAGAAGACTTAGACGGTGCAAAATATACACAAACAGAAAAACAGGCGTCAGAAATTGCAGAGGGATCAAGAGATAGAAATGATGAAACGACGGCAGAAAATACGATGAAAGACTTGTCAAAGATTATCGGTAAGGTATAGTACCCTTGTCCGTTGCTTTCTCAACGTCTCTCGGGTTCCATTTTGTTGTGATATATTTAAATAGGTAACTTTTTGGGTGTTCTTTCTGATAAAATACTCTCACAACGCGCAGGCGTTGTTTAGATCTGGAGAATTTCCGTGATGGAAGCAAAATCTTCAGCTTTCCATCGACAGTTTAGATAAAGATATTTAAAGTGTGAcaatgaagtatttaaagttcATCAGGAACATTGCATTGCCTTTaattttttcagaaaattatAATCAATGAATTTCATAATGTGGTTGCCTTaaggtggagttacacgagcaacaaaattgctgcaacttgcaacaacatcGGATTTCAAAGCGTGTTAATTAGAAATgattacacataaattacaagtcacaaggcaacatgtgtcgacgtttctacttaacatgctttgaaatcagattttgttgcaagcatagatatcttatataaactatatagcgcatctcttttagtaaaattgaagccaagaatatcccagcggttacccccatttgaatagatggcggccatgttggagcttcccactcgctaataaacgcttaaaaaataacaataactttcatcatttaaatagtttgaaaatgtatttataataggattaacttcatgtttaagttccctgtttaagaaataggatacatacgaatcttctcatttcatgggaagatcctgagcctgcaattacggcttcaatttttgaattgcagaataattagatgcgctatctagtgtatataagatatctatggttgcaagttgcagcaattttgttgctcgtgtaactccatcTTTAGCCATAATACTGTATATCAAAAAAATAATTCTGAAAATCAAATAGAAGTCATTATGTTCATTTTTCGTCTGAGTTTTTGCCAAGTTGTGCATGGTCACGGTGATTGAACTTATTCATTGTAGAGGTGGGTCCaatattagatagcttaagatctacgacgtcgacgtcagctaggacatcagggctatgcagaggactgggactaggatgtcgtcctgatgtagtcccagtcctctgcttagccctgacgtcctagctaacgtcgacgtcgtagatcttaagctatctaatgtCCAATATGGGTAGCTGAGGTGAAACATGCTACTatgatgaataatatttaatgaagtagagacaaaggatttgtgcacgaggagatacagttcaacatcaaacaaagatTTTCTTTATAAGTACCAGTTGTATTCCGCGTAATATGGATAACTGTATTTTTAACCTTTACATGTAGATACACATAATGAAAGCAATCAAAATCTTCAAACATCTAATACGTCAGATGTTGCTCAAGTGCTGGACATTCATTGTGAGAATGTTAATAATAGTGATCACAAACACATCGAAAACGAAATTGTGAGTGACGAAACAGGAAATTCGGCCGACCAATTGTCGGTCATGGGATGTTCTCACGAAAATAAAG

Protein

UniProt (Swiss-Prot top hit)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0255771 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF17874 all species →	TPR_MalT	MalT-like TPR region	Repeat	Interproscan
PF13424 all species →	TPR_12	Tetratricopeptide repeat	Repeat	Interproscan
PF13181 all species →	TPR_8	Tetratricopeptide repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019734 all species →	Repeat	Tetratricopeptide repeat	Interproscan
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan
IPR052386 all species →	Family	G-protein-signaling modulator	Interproscan
IPR006597 all species →	Repeat	Sel1-like repeat	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45954 all species →	LD33695P	Interproscan

Gene Ontology

GO term	Category	Description	Source
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
K07126	K07126; uncharacterized protein	-	Function unknown	-	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of CAB4009698.1 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

3TPM > 0

4Conditions

1.7Max TPM

0.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	3	0.40	1.70
apical branchlet · Temperature treatment at T0	6	0	0.00	0.00
apical branchlet · Temperature treatment at T25	5	0	0.00	0.00
apical branchlet · Control at T0	4	0	0.00	0.00

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	1.70
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.61
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.06
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
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977427	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
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977438	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	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
SRR19977435	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
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00
SRR19977443	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.