Gene detail

Detailed information of CAB3990689.1 in Paramuricea clavata

Genomic Location: pcla8_s001738:8339...11123
NR annotation: CAB3990689.1, probable arginine N-methyltransferase [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-PACLA_8A058846

AGCGATGCTAGTTATTTTGTACCACATGGTCCACATGTTTTGTCCGATACATAAAGTATTCTTTCTCGAGTTCTCTCTTGAAAGTTCAAATTTTACTATATCATGAAGTCAAATATCACAGACGAAAGCGATGAAAGTTCAGACTGTTCTGATACGACTGAAACAGATTGTAATACTTCGTACTTCACAAGTTATGAAAATCTCGAAGTTCATCGCCTCATGTTGAATGATCGTCCTCGCACGGAGTCGTATCGGCATGCCATTCTGCAGAACAGAGCGTTATTTCAAGATAAAATTGTTATGGATGTAGGCTGTGGAACTGGCATACTTTCGCTCTTTGCAGCAGAGGCAGGAGCAAGGAAAGTATTCTCTATCGAAGCTAGTAATATTTCTTTAATTGCAAGGGATATAGTCAGAcaaaataactttcaaaatatTATTGAAGTATTCAGTTGCCAAGTGGAAGACTTCATTCTGCCAAATTCTGAGAAAGTTGATGTAATCATATCTGAGTGGATGGGATTTTATCTACTCCATGAGTCAATGTTGGATTCTGTGATATTAGCACGGGATAGGTTTCTTAAAGATTCTGGAACTATGTTTCCTAGCAAGGCTTCCATATATGCATGCCCGTCAAATCTTAATGGCTTTTATGAACAAGAGATTGACTTTTGGGATACTGTACATGGCTATGATTTTTCTGTCGTAAAGCAGATAGTGCTTCAAAACAAACAACAGTCACCACAAATTTTATCTGTTGATAACAGTGAACTAGTTGCTGGCCCTGAGATTGTGAAACAGTTCAATTTAATGAATGTCACTGTAGAAGATGTGAAACAATTTCAAAGTAAGTTTTTTACATCGAGTATGGAGAAGAACATCTGTCGTGGCATCGTGCTATGGTTTGACTGTGAATTTCCCACAGAACTGAAGTCGGAAAACAGCTTAATTCTGTCAACTGCCCCACGATGTCCACCCACCCACTGGAAACAAACTGTAATTGTCCTACCAACTGAAATCAGTCTACAAGCTGGTGATGTCATTGGTTTTAACATTAAGCTGTCACAGAGTGCTACAAATCATCGTCATTATAACATCCAGGTTGAAGTTCTTTCTGATGAGGAGGACCACCCGATGCCATGTAACTGTGGTTTGGCAAGGTGTAAGTTGATCAAAACTTTCATGCAGGAACAAGATGAGTTAGATGGTAATGAGGTTATTGATATCTCATAGGGTTTGGCAAGGTGTAAGTTGATCAAAACTTTCATGCAGGAACAAGATGAGTTAGATGGTAATGAGGTTATTGATATCTCATAGATCTAGATAGATTTTCAAACTACTGGGtcatattccagaaaacatctgCATTGCACCCAGGGCTCAACATAACAGGGGATAGATCTCTGGTCAAAATGACTggtcaacttgattttagctTGGCTtggtcaaaatttatttttgacccTTCATTTATATGCTTAAactaacagtgaaacaaactaATGGAATCTTGTTTCgatacatcatagtttcatgttaTGTTTCAAGATATCAGCAATCACATTTGGCAACGCATGAAAATGTGGCCGGTCAAAATGACTGGTGAGGTAAAAAGTGACCGTTGAAGAGTCATTGTCTGTTGACCGgtcgttattttgagccctgccaaaataactatatttgcaAATCAATTAAATTGATACTCAGACGCTACTAGTATGtgacactaacaagttgtcaaactggatgtcataTGCCATATTTTGACAGGAAAAATTAATTCAATagaatataaaactaaataaatcaGGGTTTTGCACCCTGCATGCTGATTTCACACACTCAAATATCCTAGCAGTGACCAGATGATTATTTGGACTGGGTAAATATTATTATAGAGCAGTGCCAGTGATGTTTTTTACCTGTGCGCATACTGTATTGATATTTAATGTTAAGATGCAAGCATGGTGATCAAATTTCTTTGCCAGCCAATGAGACATTGTGGTTTACATGTGATCAGAATCTCACATTCGCAGTGTCACTTGACTATCTGTCAAAACAatgctatgcaaatttattaaatatatccAAAATGGAACCCAAATGCTCATGAACAGTTGTTAGTGTTTGACCTGGAGGATTTTATTCTTGACTGGCATAATCTAATTTTGCAGCACCGCCTAGTTTAACTGGTACATTTTGGGATATTTGTAGTTGTGATACGAGTTAATCTTGAGTTTGGGTTTACCTTTGCTCTGTGATTATGTAAACCTTTTCAATCTCAACCAGTCTAATCCATAACCCTAATCCTGGCTTGATAACTTAGCCTGAACTTGGACTGAAACTCACACCTGGGTCCCAGTACATTTTACAAGTCCAAACAACACAAATTTCCTCCAGATATTATATGATACATGTAGATATCATGCGGATATTTTCTGGAGTGAGCCATCTTTTTAAATCTGTTAGTCTTGCTAAGGCCACAATGGCAGATATTGGGGGTGAATGGGTATGTTTAGCaggattttgatatgtttgcaTTTAGTTAAATGCGGATTATATAAATTGGGTATTTTTAGATGTCCACTGTATGGCATACAGTGGCAgacactttgcaaaatattttggggAGGAGTTAGGTTGCCAACATATGATCACCATTTGTAGgaaccccccaccccctccccccatgcAATTTCATGCAGTGCATAGCTTATTATAGAGTAGCTCACAAATGCTTCCATagttgaaatattatttctGCAGCTTaagccctgtttaaacg

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q08A71	Probable protein arginine N-methyltransferase 6 OS=Arabidopsis thaliana OX=3702 GN=PRMT6 PE=2 SV=1
Q7XKC0	Probable protein arginine N-methyltransferase 6.1 OS=Oryza sativa subsp. japonica OX=39947 GN=PRMT6.1 PE=3 SV=2
A2XYY8	Probable protein arginine N-methyltransferase 6.1 OS=Oryza sativa subsp. indica OX=39946 GN=PRMT6.1 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001240 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06325 all species →	PrmA	Ribosomal protein L11 methyltransferase (PrmA)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029063 all species →	Homologous_superfamily	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Interproscan
IPR025799 all species →	Family	Protein arginine N-methyltransferase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11006 all species →	PROTEIN ARGININE N-METHYLTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016274 all species →	Molecular Function	protein-arginine N-methyltransferase activity	Interproscan
GO:0018216 all species →	Biological Process	peptidyl-arginine methylation	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	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
K11437	PRMT6; type I protein arginine methyltransferase	EC:2.1.1.319	Chromosome and associated proteins	ko03036	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of CAB3990689.1 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

15.3Max TPM

2.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	4	4.90	15.35
apical branchlet · Temperature treatment at T0	6	3	2.67	14.34
apical branchlet · Temperature treatment at T25	5	1	0.11	0.56
apical branchlet · Control at T0	4	1	0.27	1.08

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	15.35
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	9.05
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	3.53
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	1.46
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	14.34
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.17
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.52
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	0.56
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	1.08
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.