Gene detail

Detailed information of OS493_010460-T1 in Lophelia pertusa

Genomic Location: scaffold_25:2238687...2240300
NR annotation: KAJ7392801.1, DNA-binding transcription factor yap1 [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P46936	Transcriptional coactivator YAP1 OS=Gallus gallus OX=9031 GN=YAP1 PE=1 SV=1
Q2EJA0	Transcriptional coactivator YAP1 OS=Rattus norvegicus OX=10116 GN=Yap1 PE=1 SV=1
A0A8C0NGY6	Transcriptional coactivator YAP1 OS=Canis lupus familiaris OX=9615 GN=YAP1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008308 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00397 all species →	WW	WW domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001202 all species →	Domain	WW domain	Interproscan
IPR036020 all species →	Homologous_superfamily	WW domain superfamily	Interproscan
IPR051583 all species →	Family	Yes-associated protein 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR17616 all species →	YES-ASSOCIATED PROTEIN YAP1 FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0003713 all species →	Molecular Function	transcription coactivator activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0035329 all species →	Biological Process	hippo signaling	Interproscan
GO:0045944 all species →	Biological Process	positive regulation of transcription by RNA polymerase II	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
K16687	YAP1, Yki; transcriptional coactivator YAP1	-	Hippo signaling pathway - multiple species	ko04392	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_010460-T1 across 110 RNA-seq samples of Lophelia pertusa. 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.

110Samples

110TPM > 0

7Conditions

1,229.6Max TPM

227.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	109.45	160.76
polyp at pH7 6	18	18	120.24	151.28
coral polyp · control treatment	16	16	228.68	353.41
coral polyp · oil and dispersant treatment	16	16	269.06	478.65
coral polyp · oil treatment	16	16	202.70	360.18
coral polyp · dispersant treatment	16	16	520.20	1,229.56
Polyp	10	10	134.05	302.06

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	160.76
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	154.77
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	141.98
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	139.72
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	134.81
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	126.96
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	118.89
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	118.09
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	101.65
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	100.74
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	95.66
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	94.12
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	91.68
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	91.11
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	80.98
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	73.67
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	73.55
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	70.88
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	151.28
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	148.15
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	145.99
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	145.68
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	144.46
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	144.21
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	141.87
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	141.13
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	138.51
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	135.96
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	106.40
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	100.73
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	90.56
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	89.63
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	87.77
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	85.72
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	83.39
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	82.87
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	353.41
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	352.62
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	336.38
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	257.66
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	252.33
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	236.53
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	236.30
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	223.94
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	219.72
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	207.80
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	201.10
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	189.13
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	182.30
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	175.12
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	146.07
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	88.52
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	478.65
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	382.25
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	358.88
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	317.90
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	297.09
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	290.67
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	286.82
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	258.64
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	249.34
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	240.38
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	232.55
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	218.68
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	191.81
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	190.10
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	170.82
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	140.35
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	360.18
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	300.63
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	262.01
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	258.00
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	245.18
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	226.74
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	220.49
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	219.78
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	219.61
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	219.05
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	152.03
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	134.63
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	134.07
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	123.33
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	100.64
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	66.89
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,229.56
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	632.37
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	597.54
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	572.95
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	556.96
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	544.74
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	542.33
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	538.69
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	536.77
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	502.69
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	496.23
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	467.04
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	445.30
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	425.59
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	125.52
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	108.91
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	302.06
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	217.48
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	209.39
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	134.94
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	119.40
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	106.82
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	88.55
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	85.57
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	39.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	37.27

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 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.