Gene detail

Detailed information of CAB4035348.1 in Paramuricea clavata

Genomic Location: pcla8_s023351:4339...7981
NR annotation: CAB4035348.1, Phospholipase D2 [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-PACLA_8A000054

CGTtaactgaacgcaggctcgcgtcaGGTTATTTAAATAACCATGTTTTAATGTCTTTAATcgcaaaaattaaaaaaaatacagtAGTTTAACACTTTTAACTAAAGAACTATCGATATCTAAAGGTAGGTATATTACTTTGCATTCTATCGGccattttaatgtaaaattcaacacgGAACGCTTCATAAACTGTTGTCAAATAAGCTCTTTAAACGTACGTACTAACGGGCATTACGTCATTATACTCCTATTTTGAATACATTTTGAATCATACAATAGTTTGCTATCCTTTTGAGCTTTTATGAAAAATTACAACAAGTTTTAAAAAGCTTTCACTTTTGCGCTGGGTCTAAATGCTTTAATCCTCTATTCTTCTTCATCTttaaggccaatgaaaattgatatcatgtttctcgtccacaattttcaaaaatttggagcggggttttttcatttttcattattttttgtatttgaattctgcttgtcaataatttccttgacccagtaAAAACCCCCATAAAAATCTCAAGTATTAAAAATTGGTgcataattcattttaatttaatacgtcctacactacagtctacagactacagtatatttctttacataccagggctgacatgaaaaatagaggcattctggcgagtaatatctttagaaagatacaatttgagttgcgcttgcggaatacagcaataagactttgatctggagatgaatttggtgttttttaagcctatttatcaaaaataatgaataatgaaaaattttcgtgcggcacataaatcccatgcgggcggggacgaaaaacatgatatcaattttcattggcctaatgcacctatcaatgttaagccccagggTGGGAGGGTTgggcatatgtggggcatttgatttttcatgcaATTTTTTGGTCAAATTCCCTACCATGGGGAAGCTAATATCAGTCAAATGTGATCAAATGCCCCAATGTTGGGCACACTTATTTGtggtcacagagtagagacatacagagacgtaactagtgtacccactttttttgtgtgcatgctcggcaagttactagatgcatgcatctgattggatgacgacctgatgacgactcactttaaacttgctgagcatgcgcagttgatcatttttcgcccggtcgcctgaaaaaaagtgggtacatgataacgtaatcttccgcagtgtttacaacagTCAGTTaagtctctgtatgtcttatctactctgtgttgTGGTGAAAGGCTTGAAAGTCGTTTGTCCCAGTCCTCAACAAGTGCTCTTCCTCAGCATACAAGATGGCGCTCAATTCAAATATCCCCACCCTCGGAGGTGGAGTCAATGAAATTCCTGAGGGTGGGGGAACAATAAtcggtcaaatgccccacatatgcCAAATTGCCGCCCGCCCCCgaggcttaacattgataggtgcataaacaCCACTTCTGCACATGTttcaataccataccatatagcATGTTCCTGTATTCATAAATGGGCTGtgcattatttttaaacttCCATTCACCTGGTTGATCCATCATGTATCATTCTGTTTCTTTCAGCATCATAGCAATTGGCACCTCTGTCAAGCAAAATCTGACTGGCAAGTAGCTATCTCTTGGCAGATAGCTGTCTCCTGGTGAGTAGCTATCTCCTTGCAGAAAACTTGCTGGTTCTGATAATGGCCCAATCCGCCCATAACATGCTGTCATTCACAAATGATTATCGGCATGGCTCATTTGCCCCAGTTCATGAGAGGTGTAAAGCTGTGTGGTACGTGGACGGCAAAGACTACATGTCTGCTGTGGCCGATGCTATCATGGCAGCCGAGACAGAAATCATGATTACTGACTGGCAAATGAATCCTGAAATCTTCATGAAAAGACCTGATTCTGGAGTTGATGGTCTAGATTGGCGACTGGACAAGATGCTGTTAAAAAAGGCTGACGAGGGTGTTAAAGtgaaaatattattatacaaagGAATGAAATTATTAAATCTTGGAAGTGGTCACGTTGTAGAAGTGCTAAAGCATCGAAATATCGAAGTTCACTGCCATCCCGATATCGTTATCGGAGCACAGAATTTATTTTGGTGGGGTCATCATGAAAAGATGGTCATTGTTGATCATAGTATTGCATTTGTCGGAGGCATTGATCTCTGTTATGGTCGCTGGGATACTCGAGAACATGAGTTGATGGATAATTATCCTGTCCATCTTGCTGTAGATGGACGCGAAGCTTCAGATGATAACCCACACGAATATGCTCGGTGGATCGGCAAGGattatataaatacattttacaACATGGAGGAGCAAACGGACTGGGAGAAACCACTGGAGGGTTACGAGGGTGTTGAAAGAAATACGATTCCTCGCTTGCCTTGGCACGATGTAGCCTGTGCATTCATTGGAGAAGCTGTACAAGATGCTGTACAACATTTCACAGATAGATACCATGCCATAACCAAGGTTAGTCCTAACCCAATAAGGCAACCTGCCACTACAAGCAAGAAAACCAAAGCAGAAGAAATCGTGTCAAATTCCCGTGGCTACAACGTGAAAATTCAACTCCTGAGATCTGTAGACAACTGGTCAGCTGGTCAGAAACATGAGGCATCAATATACAACGCTTATATAGATGCGATAAAGAATGCTCAACACTTcatttatattgaaaatcagTTCTTCATTTCATCGCAAAAAGGTTTGTCACGAAAAGTTCAAAATGATATCCAAGCAGCATTGGTTGAAAGAATTGTCCTTGCCCACAAAGCCAAGAAAGATTTCCATGTTATGGTCGTGATCCCTCTGAAACCCGAGTTCCCTGGTGAATGGGACGCCAATGATTTGAACGGAGAAATTTTACGAGCAGTGACATTTTGGAATCAAGCCACTATCTACCATGGAGAAGATTCGTTATTTAGTAAGCTTGAGAAAGAGAATATTCCGAAAGAAACTGCTATGAAGTACTTCTCTGTGTATAGCTTACGTACATATGACTTGATTGGAAAACATTTTGTTACTGAGATCGTGTATGTGCACAGTAAGATCATGATCGTTGATGATCGTAAGGCAATTATTGGATCTGCAAATATCAATGATCGCAGTATGCTGGGAGACCGAGATTCCGAAGTTGCAGTTATGATAGAAGATGTAGATTCCGTTGATGGTAACATGAACGGTATAGGATACAAGATGGGAAAGTTTGCTCACAGTTTGAGATGTGATCTACTTAAAGAATATCTAGGATTGGTCGGTGACAGTGAGGATGAATTTGACATAAGAATCAACGATCCACTGGCCGACAGTTTTGTTAAAGATGTACATGATCGGGCAGAAACAAATACTCGTATGTTTCTAGAAGCGTTTGGTCAAGGTTTACTTCCAAGAGAGGATGTGGAAGATTTTGAAGCGTTTCAACATTATAAAGATGTTTCTTTGCTTCGTGAAAATACACCACAGGCTGAAAAGATTCTGAGGCAGATAAAAGGAACTCTAGTGAACCATCCTGGAACATTTTTGATGAAAGAACTTAAACCTTTCCAATTACTAGATACTCTCTGCCTTCTCATGGCAGTAGATCGCATCGACCAAGAGACAAATTTCTTGGTTTAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q0V8L6	Phospholipase D2 OS=Bos taurus OX=9913 GN=PLD2 PE=2 SV=1
P70498	Phospholipase D2 OS=Rattus norvegicus OX=10116 GN=Pld2 PE=1 SV=2
P97813	Phospholipase D2 OS=Mus musculus OX=10090 GN=Pld2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001609 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00614 all species →	PLDc	Phospholipase D Active site motif	Family	Interproscan
PF13091 all species →	PLDc_2	PLD-like domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001736 all species →	Domain	Phospholipase D/Transphosphatidylase	Interproscan
IPR016555 all species →	Family	Phospholipase D, eukaryotic type	Interproscan
IPR015679 all species →	Family	Phospholipase D family	Interproscan
IPR025202 all species →	Domain	Phospholipase D-like domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR18896 all species →	PHOSPHOLIPASE D	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0004630 all species →	Molecular Function	phospholipase D activity	Interproscan
GO:0006654 all species →	Biological Process	phosphatidic acid biosynthetic process	Interproscan
GO:0035556 all species →	Biological Process	intracellular signal transduction	Interproscan
GO:0009395 all species →	Biological Process	phospholipid catabolic process	Interproscan
GO:0043231 all species →	Cellular Component	intracellular membrane-bounded organelle	Interproscan
GO:0060627 all species →	Biological Process	regulation of vesicle-mediated transport	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
K01115	PLD1_2; phospholipase D1/2	EC:3.1.4.4	Membrane trafficking	ko04131	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of CAB4035348.1 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

5.3Max TPM

0.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	2	1.00	5.33
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	1	0.03	0.13

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	5.33
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.66
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
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977444	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
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.13
SRR19977442	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.