Gene detail

Detailed information of OS493_017555-T1 in Lophelia pertusa

Genomic Location: scaffold_56:1739925...1740254
NR annotation: KAJ7385178.1, Zinc finger protein glis2 [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
P08151	Zinc finger protein GLI1 OS=Homo sapiens OX=9606 GN=GLI1 PE=1 SV=1
P47806	Zinc finger protein GLI1 OS=Mus musculus OX=10090 GN=Gli1 PE=1 SV=4
P55878	Zinc finger protein GLI1 (Fragment) OS=Gallus gallus OX=9031 GN=GLI1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009225 (this species only) · gene tree & orthology

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
IPR043359 all species →	Family	C2H2-type zinc-finger protein GLI-like	Interproscan
IPR036236 all species →	Homologous_superfamily	Zinc finger C2H2 superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45718 all species →	TRANSCRIPTIONAL ACTIVATOR CUBITUS INTERRUPTUS	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: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

No KEGG orthology assignment for OS493_017555-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_017555-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

110TPM > 0

7Conditions

19.1Max TPM

7.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	6.69	13.59
polyp at pH7 6	18	18	7.24	14.28
coral polyp · control treatment	16	16	8.18	12.28
coral polyp · oil and dispersant treatment	16	16	10.58	19.12
coral polyp · oil treatment	16	16	8.37	12.87
coral polyp · dispersant treatment	16	16	5.93	8.72
Polyp	10	10	5.51	8.52

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	-	13.59
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.62
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.69
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.52
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.98
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.35
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.17
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.88
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.60
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.45
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.16
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.19
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.99
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.80
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.74
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.96
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.40
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.38
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.28
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.63
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.00
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.33
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.71
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.52
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.51
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.86
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.49
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.39
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.99
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.78
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.77
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.50
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.89
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.55
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.06
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.28
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.77
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.55
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.29
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.98
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.52
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.98
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.90
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.36
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.16
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.40
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.18
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.98
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.31
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.20
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.05
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.12
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.08
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.66
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.22
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.44
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.82
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.64
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.99
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.79
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.75
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.04
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.80
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.44
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.28
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.78
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.40
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.87
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.73
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.68
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.38
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.37
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.32
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.87
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.53
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.15
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.14
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.13
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.32
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.66
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.15
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.07
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.54
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.72
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.45
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.45
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.83
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.58
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.57
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.82
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.66
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.39
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.23
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.95
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.65
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.60
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.59
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.95
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.48
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.52
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.20
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.12
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.49
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.42
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.37
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.20
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.98
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.82
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.00

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.