Gene detail

Detailed information of OS493_005995-T1 in Lophelia pertusa

Genomic Location: scaffold_12:3360108...3366614
NR annotation: KAJ7339592.1, PR domain zinc finger protein 12 [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
A2AJ77	PR domain zinc finger protein 12 OS=Mus musculus OX=10090 GN=Prdm12 PE=2 SV=1
Q9H4Q4	PR domain zinc finger protein 12 OS=Homo sapiens OX=9606 GN=PRDM12 PE=1 SV=2
P0C6Y7	Histone-lysine N-methyltransferase PRDM9 OS=Rattus norvegicus OX=10116 GN=Prdm9 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000194 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF21549 all species →	PRDM2_PR	PR domain zinc finger protein 2, PR domain	Domain	Interproscan
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
IPR050331 all species →	Family	Zinc finger	Interproscan
IPR001214 all species →	Domain	SET domain	Interproscan
IPR046341 all species →	Homologous_superfamily	SET domain superfamily	Interproscan
IPR036236 all species →	Homologous_superfamily	Zinc finger C2H2 superfamily	Interproscan
IPR044406 all species →	Domain	PRDM12, PR/SET domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16515 all species →	PR DOMAIN ZINC FINGER PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0010468 all species →	Biological Process	regulation of gene expression	Interproscan
GO:0022008 all species →	Biological Process	neurogenesis	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	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
K24255	PRDM12; PR domain zinc finger protein 12	EC:2.1.1.-	Chromosome and associated proteins	ko03036	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_005995-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

108TPM > 0

7Conditions

22.2Max TPM

4.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.16	9.69
polyp at pH7 6	18	18	4.94	9.52
coral polyp · control treatment	16	16	5.60	9.60
coral polyp · oil and dispersant treatment	16	15	3.67	7.82
coral polyp · oil treatment	16	16	4.63	10.19
coral polyp · dispersant treatment	16	16	2.93	7.55
Polyp	10	9	6.16	22.17

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.69
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.63
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.39
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.36
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.20
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.13
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.82
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.56
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.47
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.07
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.85
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.44
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.07
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.37
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.05
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.50
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.16
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.16
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.52
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.43
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.20
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.57
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.48
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.43
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.41
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.80
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.65
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.31
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.17
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.91
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.42
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.24
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.88
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.62
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.51
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.37
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.60
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.03
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.84
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.39
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.12
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.88
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.98
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.58
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.36
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.31
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.99
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.52
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.08
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.75
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.44
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.69
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.82
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.70
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.33
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.66
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.57
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.39
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.00
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.37
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.31
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.27
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.20
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.08
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.57
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.80
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.62
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.19
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.23
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.93
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.87
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.65
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.25
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.22
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.21
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.04
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.69
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.58
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.40
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.32
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.05
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.88
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.64
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.55
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.14
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.90
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.64
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.47
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.95
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.82
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.50
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.36
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.20
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.48
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.37
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.30
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.23
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.72
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.25
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	22.17
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	9.84
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.38
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.55
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.53
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.86
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.59
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.43
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.24
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.