Gene detail

Detailed information of CAB4020917.1 in Paramuricea clavata

Genomic Location: pcla8_s011636:12268...15150
NR annotation: CAB4020917.1, Hypothetical predicted protein [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-PACLA_8A050151

CGCACCATCATCGAGACATTATTTTGTTCTAAAGATAAATAAACAACCTCTTGCATTATTCTTGAGAATTAAATGAAATTGCAAAGTAACATTAATAACacagtcaacagtcaacagtcaacacTCTGCAGtcaacagtcaacagtcaacagtcaacagtcaacaaTCAACACACGCGAAGAAGAGGGTAACTAGCGAGTAACTAGTGAAGTAAAGGAATTTTGGGGGGGAAATTAAGGAATGTCTCAACTGTTGCCAGTTTTACATGGTTGATTCGAAAATGGCGTCTTTCCCGTTTTCATCGGTCTTCATCACTGGAAGCAATCGAGGTCTTGGTCTGAATATGATCAAACATATTTTACATTCATCTACTGTTCCAAAACATATCATTGCAACATGTAGATCATTGAAAGCAGAGAACGCACAAGAGTTACAGAAATTAGCTGAGACGAATTCCAATATACATGTGCTGGAATTTGATATGGCTGATGTTTCTGGACCTCGTTTGCCCGAACTGGTGAAACAAGTATCAGATATTGTTCAGGAGGCTGGTTTAAATCTGCTCATAAATAATGCCGGGATGAATTTAAAGGAGACTTTTGATGAAGTAAGTCCTGACATAATGCGGCGTACTTTTGATGTGAATACTATTGCTCCATGTATGATAACCAAGGCTTTCCGACCTTTATTGAAACGAGCAGCCGAAATGAAGCAACCAGGTGAGCAACCAGAGGCAGCAGTTGTCAATATTTCATCAATTATGGGCTCAATAGACAATATCACTAATGCATACAAATTGTCATACAAAGTTTCAAAAGCTGCATTGAATATGGTTACGAAAGCTGTAAGTGGTGAATTTGCTGATGATGGTATTACAGTTGTTTCAGTACATCCAGGCTGGGTGAAAACTGATATGGGAGGCTCCAGTGCACCACTCACTGTTGACAAGTCAGTTTCTAGTGTCGTGAAGGTCATCTCATCATTACAAAAGTCACAAACTGGCAGCTTCTTCAGCTATGATGGAACTATCTTGCCATGGTGAGAGAACAGCTACTGCAGGGAATTTACATAGATAATAGATTGGAATACATAAAATCTAAGGAACTACTGTAAATATATAACAACACTGCTTTTACATAAATTTCATATATAATAGAGTTTTCAACTTGTTTGTGATGGTTGCATGCACAATGACCCACCTCATACGGTCATACCCAGCCAACTGCAGAGCATTATTTATGTCTGCAGAGCATTATTTAGTGTCATTTTGTGAACAGGCTGTCGGATTGCAGTCTCCCCAACATCGATTGGGCCTTCATGTTGCCTGCCTGTCacaaggcctaaaaaaatacctgtggttccggtttcatatcgcgaaaaaattagggtcggtttCATGGTTTTtccaataattagtgtgacaacagatgccattttggcagcagcccgcaaccacccggagaaaatagggtcgcactgTCAATCGCATTGAAAAAATACAGGTAATAGGGtcagcaaaaaaaaattgggtCAGTCGGGAATTGGAAtcgcaggtatttttttttaggCCCAATACTTGATGTATCCCTATTGTATAGCCTAAAGGAAATATAGTACTATGGTACAAcggccttttttaactatataactgggggaggggggagagGCAAAGCCCAGACCAAACCAGTTTGTCATACCATGGTATGAcaaaactttttgtcaccaacaagtgggcaacaaccatctgtcatctctccacactcattATAGTATGGTCCCCTTTTGTAGATGGCCCTTCCATggacaaattcttaaaaaaggccctgtgcTACAAGGTGGcacaatgattgtttttcaTATCACATTCATATGAATGATTGACAAAATATAGGGatgcaattttaattaatagcaatatataatacttttgtttgtggaaacagcacataaatttattactgcaaagtgTTTGATCCGTAAGCCTGggtcttcatcagtgctaataaaatgtcaagctttgcagtaataaatttacgtggtgtttggaacacaaacaaaagtattacatgttttatcaccatgcaaacctacaaagaacttataataGCTATAGCAATATGTTTGTCAAATGATTAATTTAATAACAGTATGAAATACAGAGCACATGCAATACAAAATCATTCCTTCACTGCAATGTGGTTtatataacaaacaaacaaacaaacaaacaaacaaacaaacaaacaaacaaacaaacaaacaaacaaacaaacaaacaaacaaacaaacaaacaaacaaacaaacaccaaaaaccaaaaaccaaaacaaaacaaaaaaaaaacacatacaCAACATCACTTCCACTTTGCCATTCCCAAAAATGGGTCAGGGTTTATTGGTCACCTTAATCATGTCTACTACTACTTACATAGCAATAGATAAATGGCTAACATTTGTCTATACCCAGTTCACCACTTTAGATTATTAACTCACATGTCTAATTGTCATTGTTCATATAGAATCATAGAATAGAAGGAAGGTAATATGAGTAAGCTTTGAATGATCTAAATGAGTGAATACCTCTTAGACATATAAACTCTAATGCTTATTACTTTTGTTCTATATTCTCTGCAGATtccttctgtaaactagaacaatagtaactaggcatgtgactCAATGTTATCTGTTGTGaacgtctactattagatcagtgattgTGAATTAGATATAGTGTTTCGCTAATTAATAGATAaataattatttcatattaCTACATCATTGAACAGAAACAATTACATGACAGAGAAATAGCGGGAAAATAACATGTTGCCGTTGGTTTTATGTTGTTTATTCGAGGTTTAATGTTCAAAGAAATAGgc

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q7Z9I2	Uncharacterized oxidoreductase C663.09c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=SPCC663.09c PE=3 SV=1
Q9RBP5	1-hydroxy-2-glutathionyl-2-methyl-3-butene dehydrogenase OS=Rhodococcus sp. (strain AD45) OX=103808 GN=isoH PE=1 SV=1
P37694	Ketoacyl reductase HetN OS=Nostoc sp. (strain PCC 7120 / SAG 25.82 / UTEX 2576) OX=103690 GN=hetN PE=3 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001804 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00106 all species →	adh_short	short chain dehydrogenase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002347 all species →	Family	Short-chain dehydrogenase/reductase SDR	Interproscan
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan
IPR051468 all species →	Family	Fungal Secondary Metabolite SDRs	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43544 all species →	SHORT-CHAIN DEHYDROGENASE/REDUCTASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0016491 all species →	Molecular Function	oxidoreductase 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 CAB4020917.1.

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

Expression pattern (RNA-seq)

Transcript abundance of CAB4020917.1 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

15TPM > 0

4Conditions

51.0Max TPM

6.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	4	1.70	3.85
apical branchlet · Temperature treatment at T0	6	6	8.36	24.79
apical branchlet · Temperature treatment at T25	5	3	10.93	51.03
apical branchlet · Control at T0	4	2	3.99	12.49

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	3.85
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.69
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.66
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	1.02
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
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	24.79
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	11.39
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	4.77
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	3.32
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	3.31
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	2.55
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	51.03
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	2.98
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.66
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
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	12.49
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	3.48
SRR19977442	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.