Gene detail

Detailed information of OS493_018201-T1 in Lophelia pertusa

Genomic Location: scaffold_60:20389...22312
NR annotation: KAJ7333032.1, hypothetical protein OS493_018201, partial [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)	OG0048882 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00096 all species →	zf-C2H2	Zinc finger, C2H2 type	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013087 all species →	Domain	Zinc finger C2H2-type	Interproscan
IPR036236 all species →	Homologous_superfamily	Zinc finger C2H2 superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24379 all species →	KRAB AND ZINC FINGER DOMAIN-CONTAINING	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000977 all species →	Molecular Function	RNA polymerase II transcription 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
K09228	KRAB; KRAB domain-containing zinc finger protein	-	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_018201-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

4.9Max TPM

1.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	1.62	3.45
polyp at pH7 6	18	17	1.97	3.75
coral polyp · control treatment	16	16	2.16	3.52
coral polyp · oil and dispersant treatment	16	16	2.34	4.85
coral polyp · oil treatment	16	16	2.56	3.58
coral polyp · dispersant treatment	16	16	1.08	2.03
Polyp	10	10	1.81	3.19

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.45
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.48
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.44
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.29
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.13
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.11
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.98
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.60
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.48
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.43
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.42
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.37
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.28
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.97
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.85
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.84
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.67
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.45
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.75
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.74
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.71
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.84
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.75
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.06
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.03
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.01
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.00
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.97
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.60
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.49
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.47
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.27
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.18
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.15
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.38
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.52
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.18
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.07
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.76
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.44
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.26
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.17
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.15
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.14
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.11
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.75
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.57
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.50
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.48
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.33
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.12
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.85
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.06
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.91
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.74
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.53
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.48
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.48
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.44
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.42
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.16
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.03
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.02
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.59
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.54
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.40
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.73
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.58
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.48
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.40
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.34
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.15
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.65
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.65
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.54
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.52
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.42
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.28
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.26
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.17
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.07
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.83
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.60
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.03
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.76
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.64
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.61
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.45
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.35
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.27
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.03
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.95
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.85
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.68
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.59
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.58
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.55
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.50
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.44
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.19
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.00
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.78
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.46
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.72
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.65
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.42
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.18
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.39
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.35

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.