Gene detail

Detailed information of OS493_023023-T1 in Lophelia pertusa

Genomic Location: scaffold_99:946648...951583
NR annotation: KAJ7378488.1, DNA-binding protein satb2 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008411 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16557 all species →	CUTL	CUT1-like DNA-binding domain of SATB	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR032355 all species →	Domain	SATB, CUT1-like DNA-binding domain	Interproscan
IPR038216 all species →	Homologous_superfamily	SATB, CUTL domain superfamily	Interproscan
IPR039673 all species →	Family	DNA-binding protein SATB1/SATB2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15116 all species →	DNA-BINDING PROTEIN SATB FAMILY MEMBER	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:0006338 all species →	Biological Process	chromatin remodeling	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

No KEGG orthology assignment for OS493_023023-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_023023-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

27.0Max TPM

10.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	9.86	12.66
polyp at pH7 6	18	18	8.22	13.33
coral polyp · control treatment	16	16	14.52	26.96
coral polyp · oil and dispersant treatment	16	16	8.97	13.32
coral polyp · oil treatment	16	16	12.49	20.12
coral polyp · dispersant treatment	16	16	8.61	15.56
Polyp	10	9	8.43	17.29

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.66
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.35
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.99
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.49
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.92
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.91
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.90
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.54
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.09
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.86
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.71
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.71
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.02
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.35
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.16
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.94
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.45
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.51
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.33
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.27
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.75
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.54
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.51
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.03
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.65
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.17
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.84
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.77
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.68
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.45
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.30
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.05
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.86
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.78
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.64
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.33
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.96
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.45
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.91
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.52
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.01
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.53
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.89
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.00
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.96
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.92
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.33
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.95
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.76
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.49
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.66
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.32
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.97
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.09
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.06
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.36
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.74
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.66
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.13
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.11
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.81
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.79
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.53
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.15
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.18
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.70
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.12
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.39
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.13
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.01
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.47
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.70
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.92
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.48
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.05
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.78
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.30
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.27
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.70
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.52
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.28
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.78
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.56
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.49
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.52
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.26
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.86
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.24
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.60
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.44
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.05
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.37
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.09
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.55
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.30
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.40
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.54
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.53
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	17.29
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	15.65
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.26
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	12.70
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	9.77
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.53
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.66
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.13
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.30
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.