Gene detail

Detailed information of OS493_023086-T1 in Lophelia pertusa

Genomic Location: scaffold_100:317687...330189
NR annotation: KAJ7371748.1, Grainyhead-like protein 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
Q8K5C0	Grainyhead-like protein 2 homolog OS=Mus musculus OX=10090 GN=Grhl2 PE=2 SV=1
Q6ISB3	Grainyhead-like protein 2 homolog OS=Homo sapiens OX=9606 GN=GRHL2 PE=1 SV=1
Q5RAR8	Grainyhead-like protein 1 homolog OS=Pongo abelii OX=9601 GN=GRHL1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005111 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04516 all species →	CP2	CP2 transcription factor	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007604 all species →	Domain	CP2 transcription factor	Interproscan
IPR040167 all species →	Family	Transcription factor CP2-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11037 all species →	TRANSCRIPTION FACTOR CP2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000978 all species →	Molecular Function	RNA polymerase II cis-regulatory region sequence-specific DNA binding	Interproscan
GO:0001228 all species →	Molecular Function	DNA-binding transcription activator activity, RNA polymerase II-specific	Interproscan
GO:0003700 all species →	Molecular Function	DNA-binding transcription factor activity	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
K09275	TFCP2; transcription factor CP2 and related proteins	-	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_023086-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

101.4Max TPM

32.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	19.22	30.91
polyp at pH7 6	18	18	23.23	33.48
coral polyp · control treatment	16	16	40.33	74.19
coral polyp · oil and dispersant treatment	16	16	58.85	101.40
coral polyp · oil treatment	16	16	39.05	68.11
coral polyp · dispersant treatment	16	16	30.94	51.10
Polyp	10	9	12.69	22.57

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.91
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.53
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.70
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.33
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.43
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.65
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.95
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.67
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.67
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.07
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.78
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.53
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.90
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.54
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.87
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.31
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.80
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.32
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.48
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.48
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.51
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.90
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.56
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.48
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.19
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.24
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.06
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.79
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.95
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.64
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.51
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.28
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.83
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.58
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.69
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.93
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.19
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	70.90
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.53
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.16
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.10
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.33
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.36
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.19
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.43
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.88
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.99
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.32
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.95
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.76
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.52
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.61
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	101.40
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	99.67
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	88.57
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	77.87
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.97
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	64.34
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.55
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.13
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.60
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.17
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.89
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.38
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.20
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.94
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.07
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.78
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	68.11
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.41
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	56.38
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.46
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.60
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.81
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.02
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.99
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.51
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.40
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.13
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.60
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.35
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.24
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.97
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.91
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.10
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.44
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.79
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.80
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.70
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.62
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.17
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.55
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.52
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.45
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.42
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.08
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.83
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.74
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.38
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.44
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	22.57
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	20.65
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	19.94
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	18.64
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	14.70
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.71
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.31
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.84
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.60
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.