Gene detail

Detailed information of CAB4010024.1 in Paramuricea clavata

Genomic Location: pcla8_s006817:4477...7917
NR annotation: CAB4010024.1, transcription factor AP-1-like [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-PACLA_8A016615

TTTCATTCCGATAAAAGTCGGAGGTAAAACGATATCAAAAATTTGGTGTTTGCTCGAAAGGCAGCAAGTTGCTGGCCATTCATGGACGTTTTATCCTTTTTGGAGACAGAAAGACGAGATTTTACTAGAGGCGAAGATAATTTTATGATGTCACTGTACGACAAGAAAAGATTGAAGCTTGATTTACCAAGTAAAGTTAAAAAACAAGACAATAACAATGCGGTTCTTACTTCACCTGATTTGATAAAGTTGAAGCTTGATTCGCCAGAACTCGAGAGAATTATCCTTGCTACTGCTGGCAGTGCTACTCCCACACCGAAACAATACAGAAGAATAAAAGGAGCTTCAGATCTTACTGTTAGAGAACAACAAGAACAATATGTACGAGGATTTGAAGACGCTCTCAATAAAATGAGACAGGAAAGCAACACAACACAGCAAAACAACGAAGCCATTGCTTCGACATTAAGCACTATAATCTCTAACAATAACAACACTATCACGAAAACGACTCATGATAATGAAATTGCCTCAAACCAAGCAGTAAATGGGGCTTCTTACTCGTATGTTAAATGTACTGCCACTGTACCCAACACATCGTATCCAAGTACAAATTTTGTCAACACAAGCAGTGGTTTTCAACTAAAAACCCCGGCCAAACATGACCTAACCTTACCCGTGAAAAACCCAACGACAAATCATATAAGAACAGCGGAAAATACTCCAGTTGTTATGGTTAAACCTGTCCCAAACAACAGTGAATCAGATGATATCACAGCGGCACAATTATTGGTCGATCCTGTCCATGGTAGTTGTTCTCAAAATGTGTCAGAACAAAGTGAAGTCCTGTCTGTTGCTACGACAAGTTATTCTGCAATTTCGACAATACCAATAGATTTACATCAGCAAGAGGAAGTTAAAACTGAACGCAAGAAACATAGAAATCGCGTAGCTGCATCAAAATGTCGAAAGCGAAAACTAGAGAGAGAATCAACCTTGCAAGAAACTGTGAATGAGTTAAAATTCAGACATAGTGAACTGAGTAATCTAGCTTCAATATTAAGACAACAAGTTTGTGACTTGAAACTACAAGTAATGGATCATATGAAAAGTGGTTGCGAGGTATTCCCAGTGACGGCAACCTAACAATATTGTAAGTAAATGATATGTTAGTATTCTAACAATATATATTCTCTTAGTGTTAGTAATAAGTGGTACTTAGCAATCACTTTATATTCTTTTATCTGAGATAAAAAGTAATCATgcataattttaatttgtgTAGCTAGATTTTATATAATGCTTtggaaaataaagtatatattgACCAACAGTATTCTAATAGCTTAGTAAAGCAGAATAAAAACTTAATTTATAATACAGTCAAGTCTCAGTTATGGTACACTCAGATCTCTCTGCTACAGACAGTTAATATGGTCAGTCAGATCTCTCTGTTACAGACAGTTATGGTCTTTTAAAAGATAATATTTATTGGAAAATAttcaaatgttttttaaaagaaaattatttattggtacatattttgaaaactgCCTTGTAGTACAGAGGGAATATTAAAGTGGTATCTGCCTGAATAGGTTAATTCAACTGTATCTTATTATTTCCATGACAAAAATTGATCATTCAATTCactaaataattaaataatttcaaaacattcccTGGCAGtacaaaaaatagcaaaattaaACTTTGTGTTATTATAAGTTCGGGCTCAATTCCAATCAATTCCTAATTAGAGTTTCAAACCATTTCTAATTCGAACAATTGGATCTTGTGTGATTGTCTGCATTTTAgaggctgtttacatgatcccaCTTTGCCGAGACAAGATGTATGTTTGCCGGGACAAGATtctgatgtattgaaataagtcgaTTCAGCCAGACTAAATTATTTTTCAAGCAACagattctagtataatttaaaacgaaaggttgttcaagcagcaattatAATATTCTTGAACTGagatgttttcaaatatattaaatGTTCTCAAATAATTGCTTGACAACAATTGAGCTCTTCTAACtggcatttgaactttcgttaAGCCTAGTAACttgtttcaatacatcaaaatcatcttaCCTTCCATCTCGTCCCGGCAAGCCGGGATGTATTAAAACAGCCCCTTTATAGTCAAATGCACAAGAGTAGATGAAAGTTGCCAAGCAAGAGTTTGGGTTTGTGTCACTTGGAAGCCAGAAATCTATTTAAGATGTGAAGAATCTCATTATTTGCACTGATTAAATATATGGTTAGGCCTTTGATCAAAATATTGGAATTCTACAGCCTGCAAGAACCAGGCATTTAGTTCAACTGTCCTATGGACATCCCCTTGAAATTAGACAGTTGCTTTTTAATGAGGGCCATGGACAGCCtgtcagaatttttttttaaacagcaACTTACAAGCTTTgtgatatttcttgaatacctCAAATGTTGCCAGCTGCTGTTTATCGATTGCATATGTTTCCACACTCAgggtatttttttcatttttgacacCCGGGCTAAAAGCCTGGCAAGAACCAACAAGTCCCCAGAGATTACATATGCTCAAAACTTGCCCATGCTAGGACTATTTAAGTTTAGTGTAAACAAGCATGTAATAGCAGATGTGTGCTAAAACCCAAGCTCAAAAAGCTTGCATGACTCGCATTAAATCAGAATTTAGCCGGTACAAAGTTGATGAAAGTTAGTGGCATACACTTCAGGGTTTCAGTGTACATTTAAAGCTCTACAATATGAGAATCTTTGAGAACATTGGTCACTTGATTATTGTGTATGTTAATTGTGATATTTGTCAAGTGGTAAACTAGTCCAAgtgttttaaaaaatgttttttgacTGGTTTACAAAACTATAAATTTAGAGTTCCTGTGTACAGTACATTTCCAGATTGTATATAGTTTATTATTGTAATAACAGCTGCTTAATTAAGGTTATGttgcaataaaatatattattcttTCATCCTTTGTTTGAACTAGAATTTCAAAGTAAACTTGCTAACAATTGTCTGACAGATTGGTACCATAGTTAAACGGGGAAGGTACTATATAGTTTCCAGGTGCATCAGTGATGTGTAAGACGTCACAATTGATGTTAAATCTGATGCTTTTACCTTAATTAAATCCTACAAATTCTACCCTAATCTTCCGGGCTGGTTCAGGGGGCATAGGAACCCTGGGCACAGGAGGGTATGTGCCCCCCAAATTGTTTCAAAAGTCCCAAAGTgaccttttttgtgatgaaaagtgcccattttgtacaagctaatgtcgctgtaaacaCTAAATTGACATTTGACATGGAGAGGTTTAAGATGTAACTTCCACTGgggtcattccatttaatgtacaccccccccctatggacgaggtCAATAAAATTCGACACAAACACCCC

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P05412	Transcription factor Jun OS=Homo sapiens OX=9606 GN=JUN PE=1 SV=2
P12981	Transcription factor Jun OS=Coturnix japonica OX=93934 GN=JUN PE=2 SV=1
P18870	Transcription factor Jun OS=Gallus gallus OX=9031 GN=JUN PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001571 (this species only)
Transcription factor family	TF_bZIP · all TF in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03957 all species →	Jun	Jun-like transcription factor	Family	Interproscan
PF00170 all species →	bZIP_1	bZIP transcription factor	Coiled-coil	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005643 all species →	Domain	Jun-like transcription factor	Interproscan
IPR046347 all species →	Homologous_superfamily	Basic-leucine zipper domain superfamily	Interproscan
IPR004827 all species →	Domain	Basic-leucine zipper domain	Interproscan
IPR050946 all species →	Family	AP-1 Transcription Factor bZIP	Interproscan
IPR002112 all species →	Family	Transcription factor Jun	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11462 all species →	JUN TRANSCRIPTION FACTOR-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003700 all species →	Molecular Function	DNA-binding transcription factor activity	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0000978 all species →	Molecular Function	RNA polymerase II cis-regulatory region sequence-specific DNA binding	Interproscan
GO:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	Interproscan
GO:0005667 all species →	Cellular Component	transcription regulator complex	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0008134 all species →	Molecular Function	transcription factor binding	Interproscan
GO:0042127 all species →	Biological Process	regulation of cell population proliferation	Interproscan
GO:0051726 all species →	Biological Process	regulation of cell cycle	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	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
K04448	JUN; transcription factor AP-1	-	Transcription factors	ko03000	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of CAB4010024.1 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

63.7Max TPM

16.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	6	14.57	26.52
apical branchlet · Temperature treatment at T0	6	6	16.85	41.33
apical branchlet · Temperature treatment at T25	5	5	25.40	63.69
apical branchlet · Control at T0	4	3	9.86	15.78

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	26.52
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	16.11
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	15.09
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	11.89
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	10.34
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	7.45
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	41.33
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	22.25
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	16.58
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	8.11
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	8.06
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	4.76
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	63.69
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	19.71
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	17.70
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	13.09
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	12.80
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	15.78
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	13.21
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	10.46
SRR19977442	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.