Gene detail

Detailed information of OS493_034452-T1 in Lophelia pertusa

Genomic Location: scaffold_291:142017...144021
NR annotation: KAJ7376462.1, One cut domain member 2 [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
O95948	One cut domain family member 2 OS=Homo sapiens OX=9606 GN=ONECUT2 PE=1 SV=2
Q6XBJ3	One cut domain family member 2 OS=Mus musculus OX=10090 GN=Onecut2 PE=2 SV=2
O60422	One cut domain family member 3 OS=Homo sapiens OX=9606 GN=ONECUT3 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006911 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00046 all species →	Homeodomain	Homeodomain	Domain	Interproscan
PF02376 all species →	CUT	CUT domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003350 all species →	Domain	CUT domain	Interproscan
IPR001356 all species →	Domain	Homeobox domain	Interproscan
IPR051649 all species →	Family	CUT Homeobox Domain-Containing Protein	Interproscan
IPR010982 all species →	Homologous_superfamily	Lambda repressor-like, DNA-binding domain superfamily	Interproscan
IPR009057 all species →	Homologous_superfamily	Homeobox-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14057 all species →	TRANSCRIPTION FACTOR ONECUT	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	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

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
K08026	ONECUT1, HNF6; one cut domain, family member 1 (hepatocyte nuclear factor 6)	-	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 OS493_034452-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

108TPM > 0

7Conditions

19.0Max TPM

5.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.13	7.50
polyp at pH7 6	18	17	5.26	9.55
coral polyp · control treatment	16	16	7.18	19.01
coral polyp · oil and dispersant treatment	16	16	5.18	16.48
coral polyp · oil treatment	16	16	6.31	10.42
coral polyp · dispersant treatment	16	15	2.63	7.45
Polyp	10	10	2.78	4.36

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.50
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.49
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.99
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.16
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.87
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.86
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.61
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.58
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.54
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.99
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.84
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.74
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.23
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.97
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.92
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.21
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.04
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.80
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.55
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.10
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.16
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.59
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.02
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.82
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.27
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.05
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.05
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.86
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.66
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.08
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.81
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.72
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.52
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.26
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.17
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.01
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.62
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.70
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.26
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.75
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.62
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.59
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.49
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.43
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.25
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.06
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.50
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.30
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.70
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.07
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.57
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.48
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.36
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.94
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.70
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.91
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.88
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.71
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.58
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.99
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.74
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.67
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.58
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.50
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.48
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.96
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.38
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.42
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.15
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.77
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.89
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.72
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.69
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.18
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.74
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.64
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.34
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.67
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.63
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.95
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.61
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.98
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.59
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.45
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.20
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.73
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.93
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.35
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.00
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.92
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.59
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.59
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.47
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.47
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.34
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.29
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.96
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.73
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.36
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.08
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.03
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.17
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.06
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	2.96
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.14
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.01
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.21
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.79

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.