Gene detail

Detailed information of CAB4030313.1 in Paramuricea clavata

Genomic Location: pcla8_s018014:5928...7031
NR annotation: CAB4030313.1, GDP-mannose 4,6-dehydratase [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q56872	GDP-mannose 4,6-dehydratase OS=Yersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / 8081) OX=393305 GN=gmd PE=3 SV=2
Q56598	GDP-mannose 4,6-dehydratase OS=Vibrio cholerae OX=666 GN=gmd PE=3 SV=2
P0AC90	GDP-mannose 4,6-dehydratase OS=Escherichia coli O157:H7 OX=83334 GN=gmd PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003533 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16363 all species →	GDP_Man_Dehyd	GDP-mannose 4,6 dehydratase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan
IPR006368 all species →	Family	GDP-mannose 4,6-dehydratase	Interproscan
IPR016040 all species →	Domain	NAD(P)-binding domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43715 all species →	GDP-MANNOSE 4,6-DEHYDRATASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008446 all species →	Molecular Function	GDP-mannose 4,6-dehydratase activity	Interproscan
GO:0019673 all species →	Biological Process	GDP-mannose metabolic process	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
K01711	gmd, GMDS; GDPmannose 4,6-dehydratase	EC:4.2.1.47	O-Antigen nucleotide sugar biosynthesis	ko00541	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of CAB4030313.1 across 21 RNA-seq samples of Paramuricea clavata. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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

0TPM > 0

4Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
apical branchlet · Control at T25	6	0	0.00	0.00
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
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900

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.