Gene detail

Detailed information of CAB3983742.1 in Paramuricea clavata

Genomic Location: pcla8_s000676:4751...6821
NR annotation: CAB3983742.1, 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_8A064539

ATGACTTTCCAATATGGCGGTCGCAAGCAAAAAAGACGATCAACTATTATTTGGGTTGGTTTGTTTATATTTGCTGTATACATTATGATTACACTGTATTCTGCGTACAGCTTACTTGAGAATACAAGTGGAAAACAGAAAAGACAAGAGCGAGGTGTTTTAGCGAAATCTACTTTATCTACGGAAATATTTGAAGTGGAAGTATGGGGAAAGGCGGCTATCGGATTATATTTTTGGGAGCATATTATGGAAGGAAATTTAAAGAGTAAAGAAACAGATCTGGTTAGATTGGGTGAAAAAATTATTGATAATGTTAAATTTAGTTTCAGAACTGGACCTGGAATTATTCCTCAGACTGTaccaaaaaattctcaaaatgtAATTCTAATATTAAATGGTAGGGTTCgagaaaaaattaaatttgctgAAATGTGGTTAAAATCTCTTCAAATGTTACCCAATATAAAGAATGTTGCTGTGATACTATTGGGCAATGAACAATGTAACAATAATTGGTTGTTACCATATATGGTAAAACAAGGTGGATTAGTTAACATTGCATATATTGTATATGACATTCCAAATCAAGGCAATACAATATTCCAGTGGCCTTTAGGGGTAGCTACATACAGAAATTTCCCAAAAGTTATTCTCAGTGAAAGTGACATTTCGCACCATCGACAATACATGTGTAATTTTCTTGGTACAGTATACCCTAACTCCTCACGAGAAACTCTGCAAAAGATATTTtatgaacataaactctatacCATTTGTTATTTAAgacttcgggaaacatggcaaCCAACTGAAAGCAAAGAAACTGCCAATGAATATTATCATGCTTTATTACATAGTGATTTAACGTTGAGTCCAGTCGGTGTAAACACAGAATGTTACCGTTTATATGAGGCATGTTCTTATGGTTCTGTACCAGTAGTTGAGGATATCCAGACACCAGGAAACTGTTTAAATACACCTTTAAAGCTTCTAAAATACTATAATGCACCATTTATTTATCTCAAATCATGGGCTGAGCTACCAGAGattttagagaaagaaaaaCAGTTGACATTGGAACAAAAAATTCAAAGGCGAGAAAATTTATTGCGATGGTATTGGAAATTCAAGAGGAAACTTCAACAATCATTTGTTGTTCAAATAAAGAGGAGTTTTTTTAGTTACTTAGAATAGCAGCATAAATGTTATTACCAAACTGTTGATAATCCTCTTGCAGGAAAAACATGTCATGCGACTACATGCACTCTTACTGTTAAAATGTTAAAGTGTGTATGAAACTAATTTTGCCCCTATATCACACTTTGTATTTTGAATTATGACATCACTAGTTGTTCTTGAGATTGCAGCAGAAAGCTTGAGTTCCTTAGACTTGGCGATAAAACCGTTTTTGGCCGCCATCTTTACGCTTGAAATCCCTACGGCTACGGTTAAGTCTATAGATCTATTTTACAGTTTTTCTAAAACACTTCATGACTAAAACGAGGAAGCTAACACCAGTCCAAGAATCGAAAGGGAAAGAAGATTGGCTGCAGGCTATCCGCATTCCGATCACTCTTTGTCGCTTTTCAGTCGCGTGTATAGGTCTCGCATATCGTGTGAATGAATTGCGATATACGATTCTTTGGTTTTACAATATACGCGAAACCGCAAAACCAGTTTAAAAAAAGAAGATATTTATCGATTTGAATATGGAAAGTTTGTTGTAAACGAATTTTTCGTCGTACTCTGCAGTGtaagaataatatgaaactagttgtaAATGCATAATTTAGCATTTCGTAGCTTTGGATAATCTAACTCATACATTTGCGCGATAATTTCATTCCCATATATATGGTTAAAGTAAGAAACATCGGTTACTAGAAATGCGTGTCTCCAGGATGTCCAGGCGGCCGTCCGACCGTCCTATGGACGGCCACTCCTGAATTTGGacggctaaattttaatggacggcctatgggaatattttctttaaatagcaatttacaaGCTTTGTAATATCTCTTGAATACTTCGAATTGTTATCATCTGCTGTTTACTTTACTTATGG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9Y2B1	Ribitol-5-phosphate xylosyltransferase 1 OS=Homo sapiens OX=9606 GN=RXYLT1 PE=1 SV=1
Q08CD5	Ribitol-5-phosphate xylosyltransferase 1 OS=Danio rerio OX=7955 GN=rxylt1 PE=2 SV=2
Q8VDX6	Ribitol-5-phosphate xylosyltransferase 1 OS=Mus musculus OX=10090 GN=Rxylt1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009611 (this species only)

Pfam domain

No Pfam domain signature was detected for CAB3983742.1. This gene does have a gene model — the search simply returned no hit.

InterPro

No InterPro signature was detected for CAB3983742.1. This gene does have a gene model — the search simply returned no hit.

PANTHER

PANTHER term	Description	Source
PTHR15576 all species →	RIBITOL-5-PHOSPHATE XYLOSYLTRANSFERASE 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005794 all species →	Cellular Component	Golgi apparatus	Interproscan
GO:0035269 all species →	Biological Process	protein O-linked mannosylation	Interproscan
GO:0120053 all species →	Molecular Function	ribitol beta-1,4-xylosyltransferase 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K21052	TMEM5; alpha-dystroglycan beta1,4-xylosyltransferase	EC:2.4.2.61	Glycosyltransferases	ko01003	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of CAB3983742.1 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

8TPM > 0

4Conditions

9.8Max TPM

1.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	3	1.56	4.18
apical branchlet · Temperature treatment at T0	6	3	2.18	9.80
apical branchlet · Temperature treatment at T25	5	1	0.56	2.79
apical branchlet · Control at T0	4	1	0.05	0.18

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	4.18
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	3.54
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	1.63
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
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	9.80
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	2.15
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.12
SRR19977426	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
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	2.79
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
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	0.18
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.