Gene detail

Detailed information of OS493_033912-T1 in Lophelia pertusa

Genomic Location: scaffold_277:169727...170840
NR annotation: KAJ7389053.1, hypothetical protein OS493_033912 [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
Q60632	COUP transcription factor 1 OS=Mus musculus OX=10090 GN=Nr2f1 PE=2 SV=2
P10589	COUP transcription factor 1 OS=Homo sapiens OX=9606 GN=NR2F1 PE=1 SV=1
Q9TTR8	COUP transcription factor 1 OS=Bos taurus OX=9913 GN=NR2F1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0010041 (this species only)
Transcription factor family	Miscellaneous · all TF in this species
Transcription factor family	RXR-like · all TF in this species
Transcription factor family	SF-like · all TF in this species
Transcription factor family	THR-like · all TF in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00104 all species →	Hormone_recep	Ligand-binding domain of nuclear hormone receptor	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR035500 all species →	Homologous_superfamily	Nuclear hormone receptor-like domain superfamily	Interproscan
IPR000536 all species →	Domain	Nuclear hormone receptor, ligand-binding domain	Interproscan
IPR033544 all species →	Family	Nuclear receptor subfamily 0 group B member 1/2	Interproscan
IPR001723 all species →	Family	Nuclear hormone receptor	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24081 all species →	NUCLEAR RECEPTOR SUBFAMILY 0 GROUP B	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000122 all species →	Biological Process	negative regulation of transcription by RNA polymerase II	Interproscan
GO:0003714 all species →	Molecular Function	transcription corepressor activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0008134 all species →	Molecular Function	transcription factor binding	Interproscan
GO:0043433 all species →	Biological Process	negative regulation of DNA-binding transcription factor 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

No KEGG orthology assignment for OS493_033912-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_033912-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

109TPM > 0

7Conditions

118.6Max TPM

21.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	12.91	20.63
polyp at pH7 6	18	17	12.81	20.27
coral polyp · control treatment	16	16	16.70	34.47
coral polyp · oil and dispersant treatment	16	16	39.60	103.72
coral polyp · oil treatment	16	16	18.61	25.78
coral polyp · dispersant treatment	16	16	35.86	118.55
Polyp	10	10	15.55	25.16

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.63
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.38
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.30
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.15
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.97
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.86
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.54
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.90
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.22
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.13
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.06
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.50
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.84
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.62
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.02
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.96
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.68
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.67
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.27
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.38
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.34
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.15
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.85
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.78
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.16
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.01
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.40
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.36
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.80
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.52
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.28
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.88
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.12
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.34
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.47
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.60
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.14
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.37
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.66
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.61
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.28
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.29
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.87
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.40
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.29
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.95
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.91
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.27
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.59
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.56
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	103.72
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.75
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.30
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.33
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.24
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.77
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.57
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.44
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.52
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.61
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.59
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.34
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.47
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.06
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.83
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.96
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.78
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.41
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.18
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.43
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.95
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.70
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.40
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.19
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.16
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.37
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.44
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.75
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.99
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.76
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.22
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.02
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	118.55
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.39
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.08
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.40
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.10
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.39
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.66
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.44
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.41
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.88
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.19
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.87
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.65
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.38
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.39
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.90
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	25.16
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	20.02
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	17.45
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	16.10
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	15.56
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	14.74
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	14.31
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	12.65
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	10.26
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.22

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.