Gene detail

Detailed information of OS493_009169-T1 in Lophelia pertusa

Genomic Location: scaffold_22:631017...648689
NR annotation: KAJ7373847.1, Transcription factor AP-2-alpha [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
Q9N0N3	Transcription factor AP-2-alpha OS=Ovis aries OX=9940 GN=TFAP2A PE=2 SV=1
P34056	Transcription factor AP-2-alpha OS=Mus musculus OX=10090 GN=Tfap2a PE=1 SV=2
P58197	Transcription factor AP-2-alpha OS=Rattus norvegicus OX=10116 GN=Tfap2a PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004315 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03299 all species →	TF_AP-2	Transcription factor AP-2	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013854 all species →	Domain	Transcription factor AP-2, C-terminal	Interproscan
IPR004979 all species →	Family	Transcription factor AP-2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10812 all species →	TRANSCRIPTION FACTOR AP-2	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:0003700 all species →	Molecular Function	DNA-binding transcription factor activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0042127 all species →	Biological Process	regulation of cell population proliferation	Interproscan
GO:0048856 all species →	Biological Process	anatomical structure development	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
K09176	TFAP2A_B; transcription factor AP-2 alpha/beta	-	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_009169-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

131.5Max TPM

21.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	21.51	34.88
polyp at pH7 6	18	18	24.32	42.94
coral polyp · control treatment	16	16	25.35	53.50
coral polyp · oil and dispersant treatment	16	16	9.23	24.30
coral polyp · oil treatment	16	16	14.77	41.19
coral polyp · dispersant treatment	16	16	20.78	58.07
Polyp	10	10	44.05	131.50

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.88
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.78
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.37
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.32
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.47
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.84
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.78
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.30
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.81
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.24
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.24
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.80
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.32
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.51
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.40
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.02
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.98
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.05
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.94
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.90
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.37
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.81
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.76
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.29
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.67
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.35
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.23
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.88
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.17
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.48
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.11
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.61
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.28
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.61
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.26
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.50
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.46
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.89
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.28
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.99
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.03
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.30
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.34
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.01
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.20
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.48
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.86
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.48
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.38
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.13
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.24
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.30
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.19
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.96
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.54
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.49
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.47
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.36
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.33
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.11
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.14
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.87
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.51
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.08
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.99
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.96
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.38
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.19
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.42
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.54
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.19
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.28
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.50
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.90
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.83
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.96
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.74
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.33
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.23
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.84
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.00
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.26
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.14
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	58.07
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.80
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.88
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.87
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.46
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.64
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.15
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.57
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.40
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.65
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.56
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.45
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.63
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.57
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.57
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.19
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	131.50
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	62.14
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	60.11
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	48.11
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	37.17
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	31.77
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	26.41
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	22.84
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	15.43
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.01

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.