Gene detail

Detailed information of CAB4026266.1 in Paramuricea clavata

Genomic Location: not available for this species
NR annotation: CAB4026266.1, RNA-directed DNA polymerase from transposon X-element [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Sequence

No sequence record for CAB4026266.1 in PCLAV (the gene ID may belong to a different isoform naming scheme). Try the gene search.

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P27117	Ornithine decarboxylase OS=Bos taurus OX=9913 GN=ODC1 PE=2 SV=1
P00860	Ornithine decarboxylase OS=Mus musculus OX=10090 GN=Odc1 PE=1 SV=2
P27119	Ornithine decarboxylase OS=Mus pahari OX=10093 GN=Odc1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000407 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00278 all species →	Orn_DAP_Arg_deC	Pyridoxal-dependent decarboxylase, C-terminal sheet domain	Domain	Interproscan
PF03372 all species →	Exo_endo_phos	Endonuclease/Exonuclease/phosphatase family	Domain	Interproscan
PF00078 all species →	RVT_1	Reverse transcriptase (RNA-dependent DNA polymerase)	Domain	Interproscan
PF02784 all species →	Orn_Arg_deC_N	Pyridoxal-dependent decarboxylase, pyridoxal binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036691 all species →	Homologous_superfamily	Endonuclease/exonuclease/phosphatase superfamily	Interproscan
IPR029066 all species →	Homologous_superfamily	PLP-binding barrel	Interproscan
IPR009006 all species →	Homologous_superfamily	Alanine racemase/group IV decarboxylase, C-terminal	Interproscan
IPR022643 all species →	Domain	Orn/DAP/Arg decarboxylase 2, C-terminal	Interproscan
IPR002433 all species →	Family	Ornithine decarboxylase	Interproscan
IPR005135 all species →	Domain	Endonuclease/exonuclease/phosphatase	Interproscan
IPR000477 all species →	Domain	Reverse transcriptase domain	Interproscan
IPR000183 all species →	Family	Ornithine/DAP/Arg decarboxylase	Interproscan
IPR043502 all species →	Homologous_superfamily	DNA/RNA polymerase superfamily	Interproscan
IPR022644 all species →	Domain	Orn/DAP/Arg decarboxylase 2, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11482 all species →	ARGININE/DIAMINOPIMELATE/ORNITHINE DECARBOXYLASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0004586 all species →	Molecular Function	ornithine decarboxylase activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006596 all species →	Biological Process	polyamine biosynthetic process	Interproscan
GO:0033387 all species →	Biological Process	putrescine biosynthetic process from ornithine	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 CAB4026266.1.

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

Expression pattern (RNA-seq)

Transcript abundance of CAB4026266.1 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

9TPM > 0

4Conditions

11.1Max TPM

1.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	4	4.17	11.14
apical branchlet · Temperature treatment at T0	6	3	0.89	2.67
apical branchlet · Temperature treatment at T25	5	1	0.52	2.58
apical branchlet · Control at T0	4	1	0.23	0.94

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	11.14
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	9.10
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.48
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.32
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
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	2.67
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.93
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.75
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	2.58
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	0.94
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.