Gene detail

Detailed information of CAB3985409.1 in Paramuricea clavata

Genomic Location: pcla8_s000897:6678...13359
NR annotation: CAB3985409.1, phosphotransferase Tpt1 [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-PACLA_8A083059

AGGAATCGTAATGGCTAGCAGAGACAACAAGAAACATAAGCAGCGGTCGCGAAACCGTGACCCAGATTCTGACTTCTCCCGAAAACTTACTTACGTGTTACGTCACAACGCTGTTGGACTGGGGATGAATGTGGACCACGAGGGATATGTCAACATCGCAGAAATCCAAACTCACCAACTTTTTCAGCGGTTTCGACCAGTTACCAAGGAAAAACTTCAACACGTCATTGATATTGACGAAAAGCAGCGTTTTTCGATGCTCCAGCGTGCTGATGAATGGTTTATTCGCGCCAATCAGGGTCACAGTGGCGATGTGGCAGCCCAACTTGTTGATGAAAAAATGTTGACGCCAGTGTTAAGTTCAAAGGACCATCCCATTTGTGTTCACGGAACGGATACGGGTGCGTGGACTAAAATTACTGCTTCAGGCGGGCTCTCAAGGATGGGTCGCAAGCATATCCACATGAGTTCCCAACACAAAGGTTCGAAGGAAATGATTAGTGGTATGCGTAAGAGGTCCAATGTCATGATATATATTGATTTTGATAAGGCAATCGCTGCGggtattaaattttacatttccAAGAACCAAGTTATCCTGTCGGAAGGTAACGATCAAGGGATGATACCAGTTGAGTTCTTTAAAGAGGTCAAATTCCTGGACTAAACTAGCTGTAGTGAGTAATATGCTATTTGTATCGGTAAtgttaggccatataaaataaattccttgattttcatcaccgcccgacgatattttggtttccgcgttgatatatttttgtattttgttataaaatataaatttaccgcccgaccgagcatcttcagagatttagatatttttatattttatattggaatttttgcgatataaaattgttttatcgttaatattgcaacatgttaagggatgcttggaatactgaaggaaaaatgggcttatagccttattacaacgatttgtgtggacccttatgcatgttcattagcgcatgtgcaattatccacttatatagcgttcttctacaatatatttaagggcaaatataaaaagacctccctctccaattttttaaattttgaactttttttttatattttgacataaaatataaaatataaacctcccgcctcctgggagtttttaaaatttagtgatgagaatcaagaaatttattttatatggccttatagATTCGAGCGGGGCCACTCGGTTGGGCGGGGTGAGTACGAAGTgggaaaattttcctggggcCCTAATTAGAGCGAGAGGGCATTAAATATAAAGAATTTGTAGAGGATGGCCATCAAATGCACGAATTGGTAGAAAAATGTGGAATGTGTGAAATTTCGGAAatatttttccatattttttcCCAAGAATTACgcccaaaatttgaaatttaccTTGCCTCCCAAATTTTTCTCGGAGGTCCTGTGTTCGATTGCAGTTTGGAAAAGCATGTGCGAGTGAGTGTCTCAAAGATGATCAAGGACGAGtacaatttgaagtctttgaaaaactcactagTGTTTGTTTGTCCCAATTGCATGGACGAGAaaccataatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatataaaaattattttaccgTCACTTATAAACAGAtgcaaataaataatttactcaCTTCATTCGATTAACTCCCCAATCTATTACAATAAAACATCTACAGTACGCGTGTGGACTCGTCGAAAAGCGTCTTTCTGTAACAGTGTTATAaacacgggaaatttcccgTTTCGAAGCTATGAttttgaaacgtaaacaaaacaatattaaCACCTGCTGTATACTCTAAGAAAATGTGTGATATACCGATTAAAATAACGTGAAATAACATTGAAAAATTGCCCTTTTGGCTCGTTTTCTCTCTGATTATTTTTCGTTCTCCCAACGTCTCATGTGCatgtgtttctataactgtataGCAACACGAAGAACGTTTTCGTATGTATAGAAATAGTGAAGCAGAAGATTATTAGAAAAATCTACCCAGTGTATATTAGCTTTTATAAACGAAGTGAACAGTCATTATTAACTTTTTAATGCAAATTCCTTTTAGTAatgctttcaaaacaaaaccgAGAGGAAGCGTGTCATTTTCCTAAAATTGTTGCGAGCTTTGGCGTGCCATTTAAATAAATTGAATGTGCATTtatcttgcacataattttttcATCGGTGTCAAGGCTGCATGGCAGTAATCAATGTAGTCTACACTAATTAAAGGCTTTTCTGGGCGCCTGTGTTAGGAACTGCATTTGGAGTCGACGCTCGTACCGCGCTCGGTCGGAAAATGAGTGTTAATTAAGTGAACCAAGAGAGTATTTTTTTACGAATCATCTCAAACTTACATTGTACAGTGTATGAAATCATGCGTGAAATCTCAGGAAAAATTGCGTAGTGAGTAGGGAGAAAATTGTTTCGCTTTTCTAGTTGGCTTAATTTTTAATGCGAAACGAGTTTTCTGATAAGTAAATCTATATATAATGGAGAACTCAGTATCTATTTATATAACAAAGAGATATTCTTCTCTTTTAAGTAATATCACTCCCTTCGCAAGGCCAGTGCTTTTTCAGCGCGTAACCGTCAATATTCATCGACTTTAATTGCAATATTTCTATCATTGTCAGGTGCAGTTTTTAATTGTAAAGTTCATACTGCAGGCTGAAGACAATAAATCCATTAACAGGTTTCTATTTATAGGCATAAATCGAATATCAACGTGCAATTAAAACCATGCAAGCATATTTAATGGAGGGATTGACGTCTTTTCACGCTTTAAAATGCAACATGGAgagaaaatttatattttaatcgtCTTTTTTCAGCGACGCACTGCACCAGATTATTGAATCGTGAATATAATTTAACATCAGGAACAAAGAACACCGCGGATGTACAAAACAACAAGTAACACGGAACTACAGTATATGATTCTGtcattttaagttttttttaaaaagtgcAGTTTTTGCTTTCGATTTTTGTTCACAATTTGGCTGTCTTGACCATCTGTGTTTGGATATTCGCATGTCAGTTTTTCCGTTTGTAATTTTGAACGAATCACAATGAACCAAATTCTCGTGTTAGCATACGCGCGCGGTTATCAGAAACACCTTAAATTCTCAGTGTCACGAGTAAAAATATGTATTCTTCTTGTCAACAAAAGGATACAATTGAGAAACAAATTTAAACTCTGGTAAcaaattgaaaagaaaagcaTACGTAACTGTCTTTTTGTCATGTTAGCGTACTAGATTTAGCCCATCTTCATGAATGTCTTGTGAAACGTCTtaatgagaacattcgtattcttcaacactttaacataaattaatgatattgcGTCAGAAAATTTAACGGGACGATTATCTAAATCGACATAATTCTGcgtcagatatacaaactccttcaaaaacataatttctttAGCGTTTTCATCACGAATTATTAACAGTGTTTAAATAGAAATATCTGCGGTCATATAAAGTGTtacaaaaatttgcatttaagaTTGTGATTGACATATTCTAATACGTAGAGAAGGGAAAATCTCAGCGTAATGCCGTTGACACTACCCCTGGAAATATTTCGTTTTATTACTGTAGTTTCGTTTAATCCAATTGGGGGCAGCGATAACGCACTAACACAGTACACTAATTAATTAGTATGCAAGAAATTAATTTGTGTTCGACTTTTGATACCTGGCACTCATTTATTCAGTTGGTCATGTTTGACAGTGGTGGCCTTACGAGTGACGGGCGATTATGCGTGGTTATAGAACACCAAAAAGGTTAATATACCCTCGCTATTTCAAGATAAACCACGACGTATAAAACCATGCATTATAAACGGCTCTTCGACATGCACCGCCTAAGTTAGAAAATCAATTTCGAATTTCTAACcttgcaattttattttttttaatactcTGTGTCTTTAATGTTATCACATGCAACCCGTTTAGCGTCTTGCACTACAAGAATGTGTACATGACATGATGTGGTGGTAAAGTGTGCAAGGTTTTCTGGGTTCGAGTATACCACCTTCACGGCATGTAAAGCATTCTGGTTAATACTTTTCTTGGGTAACCTATTTaacgttttatattttatattaaatatttgacttattttAATATTCATGCAAGTATGACCCGCTCAAATATAACCAGAATCCTGGTTACATTAAATTAACCAGACTGTAGTATGTAGGCCTATAGGGAGTggataaaaatagcaaaattgaCCAGGAATGTTTTATTCTCAGAGTGTTTTAGAGTTAACCAGAGTTTCTTCGAGTGTTGGTAAATCATTATATACTGTAAAAACCTGCATCATTGTTAATGATAAACGAAAAATTAAATTATCACTACTTTTGGAACTGAACTCAGAAAATCACTTTGTCAACGTGAAGTTACAGAAGATATATTTTCGAATCTTAATTATATCTGTATATCTGTATatctgtatatatgtatatatgtatatacagggCGAAAAAACAGATTTGCACTAGGCTTTGCAACCCGGTGCAAAGGTGCCATTGCCGTAATCGCATCAAATTTGGAAGGTtgcaaatattttggcaaatttagaAACCAAATTATGGACGAAAATACCCAcaaattcacttgtgcaaatgAAAGGTAATTTGAGCCAAATTTATCCTATACCCATTCCCTCTCAAAAAAGAGAATTGTATTTACCAATATgagggtaaaaatttatttaccaatttgctttccaaatttgaacaaaatttgcacaatagCAAATTTGATGCGATTACGGCAATGGCACCTTTGCAGGGGGTTGCAAAGTTGGAGCAAATCTATTTTTTCgtcctgtatatatatatgtatatatatatatatacagctaattcaataaaggttgtcctttgcaaaccttaaactctaaaaccataaaatcttaaactctaagcgcgcaaagcgtaATGGGAGCACTATTTAAGCAATTTAGAAAGCATACCtggagcccatttcttagagacatggtaaatatgtgcctgcgaaaacatttcactctcaaacagctgcaatattcaactataaagcttgaaatcagtactcccattatgctttgcgcgcttagagtttaaggtttaaggtttagagtttaagctttgcaaaggacaaccttttttgaattagctgtatatatatatatatagattgtctatatcttaaaattaaatatcgctactctgagtttcacgtccgttctagacgatcatcaggcgattttgttcacgattttgttattgattacgtgattgcatcatcatcaaccgttcGCTGACGCGTTAAATTGTTTGTTCGCGCGCGTTCGAATTTCCCGGCGCTGAATTTTTCTCGATGGCGACATCTCGCGAAGAACTCGGATCTTTTGTTCAACAGATTGGTTTTCTGTAATTTCATGATTTCTAATTTCTCTTGTATGCACAAATTACAAATACTTTCCAAATACGTATGGGATTTGAAGGACAAGAAAAGGGAATACAGTATTAAGTGGTCCAGTTTGAAACGAGCAGCAGCGTATGTACCTGGCGGTAGGCGTTGTAATTTGTGCATAGAAGAGAAATTAGAAATCATGAAATCACATAAAACCAATCTGTTGAACAAAAGATCCGAGTTCTTCGCGAAATGTCGCCTTCGAGAAAAATTCAGCGCCGGGAAATTCGAACGCGGGAACAAACAAGTTAACGCGTCAGCgaacggttgatgatgatgcaatcacgtaatcaataacaaaatcgtgaacaaaatcgcctgatgatcgtctaaAAAGGatgtgaaactcagagtagcgatatttaatttcaagatatagacaatctaataagctctgctatacttttagtattgagcactttgtatatctagacaaccaaaataaattgaattatatattatataataattctaatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatacacattaaGCTTTTGGCAATATCTAATCCAATTGTCGTCCAAATTAACCcgaatttaaataaatttgtcCATATTCAATAGCCACTAGTATGGTCAATGAGCATTGTACTGATTCTAAATACTGGCATttttaagtttatttatatGTACTGATTTAATTATTGTACTGATTCTGCAGAAGGACAAACTCACACAAAGACGCACACAAGCGCGAACAACGAAAACATCACTTTCTGACGAAGATAAAAGTATACTACTGTAGAAGCTACCACGGATTTGCATAACAGGTTATAAGACCATTTGTGGATATAAAGGGGCAATGTTGCGATGGTATCCTTGGTTATCAGGACAAAACAGAAGAAAGGAAATGGTCTTAATACAAcacaattttcaaatatttttgtttaaagCGCTATTTTTTTATTAAGAGTTACAAGTTTACATGATCTACTGCCTAGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5EAR5	tRNA 2'-phosphotransferase 1 OS=Danio rerio OX=7955 GN=trpt1 PE=2 SV=2
Q2SQM5	Probable RNA 2'-phosphotransferase OS=Hahella chejuensis (strain KCTC 2396) OX=349521 GN=kptA PE=3 SV=1
Q6DA62	Probable RNA 2'-phosphotransferase OS=Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672) OX=218491 GN=kptA PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006486 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01885 all species →	PTS_2-RNA	RNA 2'-phosphotransferase, Tpt1 / KptA family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR042080 all species →	Homologous_superfamily	RNA 2'-phosphotransferase, N-terminal domain	Interproscan
IPR042081 all species →	Homologous_superfamily	RNA 2'-phosphotransferase, C-terminal domain	Interproscan
IPR002745 all species →	Family	Phosphotransferase KptA/Tpt1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12684 all species →	PUTATIVE PHOSPHOTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000215 all species →	Molecular Function	tRNA 2'-phosphotransferase activity	Interproscan
GO:0006388 all species →	Biological Process	tRNA splicing, via endonucleolytic cleavage and ligation	Interproscan
GO:0008033 all species →	Biological Process	tRNA processing	Interproscan
GO:0016740 all species →	Molecular Function	transferase 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
K10669	TRPT1, TPT1; 2'-phosphotransferase	EC:2.7.1.160	Transfer RNA biogenesis	ko03016	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of CAB3985409.1 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

7TPM > 0

4Conditions

27.7Max TPM

2.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	3	6.29	27.73
apical branchlet · Temperature treatment at T0	6	3	1.29	4.41
apical branchlet · Temperature treatment at T25	5	0	0.00	0.00
apical branchlet · Control at T0	4	1	0.31	1.23

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	27.73
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	8.17
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	1.86
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
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	4.41
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	2.10
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.22
SRR19977426	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
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	1.23
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.