Gene detail

Detailed information of OS493_026091-T1 in Lophelia pertusa

Genomic Location: scaffold_132:528888...531959
NR annotation: KAJ7327812.1, Doublesex- and mab-3- transcription factor [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
Q90WM5	Doublesex- and mab-3-related transcription factor 3 OS=Takifugu rubripes OX=31033 GN=dmrt3 PE=2 SV=2
Q76L87	Doublesex- and mab-3-related transcription factor A2 OS=Oryzias latipes OX=8090 GN=dmrta2 PE=3 SV=1
P83758	Doublesex- and mab-3-related transcription factor 3a OS=Danio rerio OX=7955 GN=dmrt3a PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000287 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13240 all species →	zinc_ribbon_2	zinc-ribbon domain	Domain	Interproscan
PF03474 all species →	DMA	DMRTA motif	Domain	Interproscan
PF00751 all species →	DM	DM DNA binding domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036407 all species →	Homologous_superfamily	DM DNA-binding domain superfamily	Interproscan
IPR001275 all species →	Domain	DM DNA-binding domain	Interproscan
IPR026870 all species →	Domain	Zinc-ribbon domain	Interproscan
IPR005173 all species →	Domain	DMRTA motif	Interproscan
IPR026607 all species →	Family	DMRT family	Interproscan
IPR009060 all species →	Homologous_superfamily	UBA-like superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12322 all species →	DOUBLESEX AND MAB-3 RELATED TRANSCRIPTION FACTOR DMRT	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0043565 all species →	Molecular Function	sequence-specific DNA binding	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:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0007548 all species →	Biological Process	sex differentiation	Interproscan
GO:0005515 all species →	Molecular Function	protein 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

No KEGG orthology assignment for OS493_026091-T1.

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_026091-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

107TPM > 0

7Conditions

5.5Max TPM

2.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	2.47	4.65
polyp at pH7 6	18	18	2.39	5.48
coral polyp · control treatment	16	16	2.19	4.04
coral polyp · oil and dispersant treatment	16	16	1.80	3.02
coral polyp · oil treatment	16	15	2.04	4.15
coral polyp · dispersant treatment	16	16	1.42	3.44
Polyp	10	8	1.72	4.09

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.65
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.52
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.28
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.25
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.07
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.75
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.90
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.33
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.17
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.06
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.73
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.62
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.61
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.45
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.09
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.09
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.65
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.27
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.48
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.33
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.19
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.18
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.13
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.91
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.54
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.53
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.37
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.32
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.06
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.93
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.80
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.79
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.64
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.60
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.57
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.56
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.04
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.60
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.52
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.38
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.15
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.84
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.77
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.30
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.76
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.60
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.31
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.29
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.22
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.93
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.78
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.60
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.02
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.66
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.51
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.29
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.18
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.95
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.94
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.81
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.69
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.64
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.63
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.56
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.51
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.01
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.95
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.44
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.15
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.87
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.80
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.71
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.70
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.69
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.42
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.17
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.17
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.08
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.67
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.46
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.05
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.85
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.81
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.44
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.31
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.76
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.75
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.67
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.65
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.61
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.54
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.32
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.29
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.24
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.08
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.86
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.62
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.42
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.12
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.09
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.72
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.07
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.26
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.45
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.39
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.05
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.16
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.