Gene detail

Detailed information of CAB4019018.1 in Paramuricea clavata

Genomic Location: pcla8_s010642:2039...4769
NR annotation: CAB4019018.1, translationally-controlled tumor -like isoform 1, partial [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-PACLA_8A038824-2

CTCATTGATGGTTTATATTATGAAGTGGAAGGCAAAGTAAGTTGGGTCTCTGAAGAGACCATGGTAACTTGTTACTTGTAACTTTTGGAACAAGTGAGTCAGCTTGCAACTCATACTTCTTCAGTAAACAGGTCATTGtagcaggcttttagccagaagggtgTCCTCAGACACCCCTAGAACGAAAAATGGACGtccaaattctgggggaaagcgaaattattttcaattatttccctaagtatattaatatatctgaaacaaaatagcttcaattctcattattattatgcaTTTgacaatttgatgaatttgatggcgtacctggctgaatgaaaatgtcatagttattaaagtaaagaagcatagcggcacaaactcacaaagccaagtgtgtttgaaaaatttcgaacagatactgacatgaagtaacgtaaacttcaaaggttttccagagcaACGTTTTCTTGAACCCCCCTCTTTACTGTGGATGTGGACGCCCTCTTTtgggaccctggctaaaagcctgcatTGTAGCTCTGGCTCATCCGTCGTGTCTATTAAATACAGAGCatttatttttcaatatttggtgTAAATTTGAGGTTGTAAGTTGCATATAGCTGCATAGGATATATGGCTGCATACACCTTGAGTTGCGAACCTCAGGAATACCGAGCCAGTGGTGGAATGAGGTAAAACATTTCAGGAATGGTTCCTGCTGCACCAATAGGAAATATTTGCTCACAACTTCACATCAATGGCATCAATGGAATGTCAAATTTGTATATCACAGATCTGATCAACACCGCACTTCTGGAACATACCAACCGCTTAACAGTCTTCCTCCCATCGACGAAAGTTCTGAGGTACTAAAGCTTGGTGTTTATTCAGTGTACTGTATTTAGCATTACTAACATTGAACCCTCGCAGAGTATCTGGTCCGTACGGGGTGCCAAACTGGCTGCTTAAAGATTGTGAATTGTGATATCCTGAACAACTCTTTCGACGAACAAGCGCATCCTGGAAATACGCAAATGTTACAACACTGCCAAAAATGAAACCATAATCGCCAAGCGTATTAGACCCATCTCGCTAACTCCGGCTCTATCTAAGTTAGCCGAGGATTTTGTCGTAAGAAATTATGTTGGTCCTGCCGTACCGAAATCATCTACAGTAATACCCAGGCTCTTATTTCCATGATACACACGTGGACTTCTGCCACTGATGGAACAGGTGTCACCAGATGACAGAAAAGATCTGATCGACCATCGGATTCTAGTTGACAAGATCTTTTCTCTTCGAATGGCATTCGCGTGGTGTAGCTCGCTGGGTGTGTGACTTTTGTTGAACAGGTTCCAACGTGTCAAACTGTCCAACGATTGTTTCTCAGAATGGGGTGCAGTTTCATCTGGTGTTTCCCAGGGTACGAGACTGGAGCCCTGGCTGTTCCTATTAATGACAAATAACCTCAACCCATCTGATGCGCACTCTTGGAAATATGTGGATGACACCACTTTGGCTGAGGTTGTCCCACATAATGGTCGAACCAAAATATAGAATGCGGTTACTGAAGTTGAAAATGGACTAACATTAACAAGCAATTCTGATCTGCAAATTAGACTAGAGATCGTTACCTTGGTTGAGTTGTTAATAATACTTTTGCCCAGGTCAACAATGAACAATACGCTCTGCAACATATCTTCATTGTCTTGGGCTTGAATATTTTAAATCATTTGTTCTGACGTGAAGAATTATTTCGTCAGGATGTTGCTCGATGATAGTTGAAACATACAGTATGATTACCTTGGCGCCTGAGAAAGATTTGACGGCTGATCTCGCTTTACTAGTCGAACGTTTACGCATGACCCAGAACATGTTTCGCAATGGAATCAAACACAAACTGCCACGGTTTTACGATCCCGCATATGGTCTGTTGGTATTTGAATGATCATTTCTTTCAATATTCTTCTTAGTAATTAATTTTTCCTTGATGGTCTTGCTGTTTTTGGTCTTTACTTCACACTGAATTGACTTGTCCATATAACCAACTCACCGATCTTGCAGCACTTTATTATTCGCAGGTTCTTTATTCACTGGGTCTCTATATTATTTATTGGGTCTCCATTAATTCATTGGAAACACAAAATTGTACTTGGTAGTTTGAAcaaaaataattgaataaaTGAAGAAAACACGAGTTCTTTTAAGTAAATAATAATCACAGATATGTATAGGATAGGCGccaccatattttgcatatttttttaCCATTATACTTTATTTTCTGTAGACAGTTGCAGAAGATTCTGGTGGAATTGATGATTCTCTGATTGGAGGAAATAAATCTGCAGAAGAACCAACTGCTGAGGAATACAGTAGTGATAGTACCTATGGTTGCAATATTGTGTTTAACCACAGATTACAAGCAGCAGCAGTAATGTCCAAGAAGGATTATGGAACAATAATCAAACCTTATGTAAAGAAAGTACACGAGTCGCTAGTTAGTGAAGGTAATGCTGATGAGGCTGCAGTTTTTAAAAATGGAATACTTGACGTTGTAAAGAAGTTGAAAGGAATGTGGGATGACCTTATCCCATATACTGGAGAGAGTTGCAACACAGATGGCATGTTGTGTTTTCTGAATTATCGAAAAAGTGGAGACCCGTATATGATATTCTTCAAGCATGGGCTTATAGAAGAGAAACAAGTAAGTTTTTCAAGTTATTAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5E984	Translationally-controlled tumor protein OS=Bos taurus OX=9913 GN=TPT1 PE=2 SV=1
P13693	Translationally-controlled tumor protein OS=Homo sapiens OX=9606 GN=TPT1 PE=1 SV=1
A5A6K2	Translationally-controlled tumor protein OS=Pan troglodytes OX=9598 GN=TPT1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006864 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00838 all species →	TCTP	Translationally controlled tumour protein	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011323 all species →	Homologous_superfamily	Mss4/translationally controlled tumour-associated TCTP	Interproscan
IPR034737 all species →	Domain	Translationally controlled tumour protein (TCTP) domain	Interproscan
IPR011057 all species →	Homologous_superfamily	Mss4-like superfamily	Interproscan
IPR018105 all species →	Family	Translationally controlled tumour protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11991 all species →	TRANSLATIONALLY CONTROLLED TUMOR PROTEIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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 CAB4019018.1.

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

Expression pattern (RNA-seq)

Transcript abundance of CAB4019018.1 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

20TPM > 0

4Conditions

180.9Max TPM

58.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	6	39.36	116.55
apical branchlet · Temperature treatment at T0	6	5	45.65	178.20
apical branchlet · Temperature treatment at T25	5	5	72.93	180.86
apical branchlet · Control at T0	4	4	87.74	171.45

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	116.55
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	115.00
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.56
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.97
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.61
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.49
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	178.20
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	56.96
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	24.71
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	12.65
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.38
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	180.86
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	100.37
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	69.60
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	13.25
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.56
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	171.45
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	147.68
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	28.14
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	3.68

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.