Gene detail

Detailed information of OS493_004122-T1 in Lophelia pertusa

Genomic Location: scaffold_8:2567144...2570384
NR annotation: KAJ7387156.1, transcription corepressor binding [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
Q5SPL2	PHD finger protein 12 OS=Mus musculus OX=10090 GN=Phf12 PE=1 SV=1
Q96QT6	PHD finger protein 12 OS=Homo sapiens OX=9606 GN=PHF12 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005166 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00498 all species →	FHA	FHA domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000253 all species →	Domain	Forkhead-associated (FHA) domain	Interproscan
IPR008984 all species →	Homologous_superfamily	SMAD/FHA domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46309 all species →	PHD FINGER PROTEIN 12	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0000122 all species →	Biological Process	negative regulation of transcription by RNA polymerase II	Interproscan
GO:0003714 all species →	Molecular Function	transcription corepressor activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0070822 all species →	Cellular Component	Sin3-type complex	Interproscan
GO:0140110 all species →	Molecular Function	transcription regulator activity	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_004122-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_004122-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

48.1Max TPM

19.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	21.03	28.37
polyp at pH7 6	18	18	21.21	32.65
coral polyp · control treatment	16	16	22.07	45.66
coral polyp · oil and dispersant treatment	16	16	22.32	48.06
coral polyp · oil treatment	16	16	20.57	28.05
coral polyp · dispersant treatment	16	16	11.17	24.09
Polyp	10	10	16.50	26.03

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.37
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.64
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.17
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.41
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.93
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.85
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.92
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.30
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.88
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.57
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.12
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.01
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.77
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.18
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.34
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.07
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.59
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.35
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.65
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.70
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.53
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.15
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.02
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.59
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.02
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.03
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.04
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.01
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.46
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.30
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.15
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.20
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.06
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.89
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.65
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.33
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.66
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.54
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.28
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.89
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.74
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.18
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.96
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.81
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.80
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.55
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.17
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.90
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.97
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.94
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.61
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.08
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.06
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.14
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.45
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.50
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.18
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.75
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.05
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.70
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.85
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.82
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.13
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.67
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.67
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.81
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.70
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.64
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.05
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.49
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.64
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.94
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.58
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.74
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.53
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.88
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.41
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.95
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.15
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.22
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.99
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.24
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.72
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.64
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.09
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.01
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.62
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.56
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.30
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.80
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.89
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.87
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.62
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.96
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.82
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.72
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.45
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.03
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.38
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.67
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	26.03
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	23.58
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	22.65
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	21.16
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	18.20
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	16.03
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.73
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	9.86
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	9.28
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.50

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.