Gene detail

Detailed information of OS493_014069-T1 in Lophelia pertusa

Genomic Location: scaffold_39:1476247...1481654
NR annotation: KAJ7379665.1, Histone-lysine N-methyltransferase prdm9 [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
P0C6Y7	Histone-lysine N-methyltransferase PRDM9 OS=Rattus norvegicus OX=10116 GN=Prdm9 PE=3 SV=1
Q96EQ9	Histone-lysine N-methyltransferase PRDM9 OS=Mus musculus OX=10090 GN=Prdm9 PE=1 SV=2
Q9NQW5	Histone-lysine N-methyltransferase PRDM7 OS=Homo sapiens OX=9606 GN=PRDM7 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000205 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF21549 all species →	PRDM2_PR	PR domain zinc finger protein 2, PR domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001214 all species →	Domain	SET domain	Interproscan
IPR052296 all species →	Family	Transcriptional Repressor and Histone Methyltransferase	Interproscan
IPR046341 all species →	Homologous_superfamily	SET domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16516 all species →	AGAP007109-PA	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	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
K20796	PRDM7_9; [histone H3]-lysine4 N-trimethyltransferase PRDM7/9	EC:2.1.1.354	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_014069-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

10.2Max TPM

4.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.47	7.41
polyp at pH7 6	18	18	4.54	9.69
coral polyp · control treatment	16	16	5.35	8.50
coral polyp · oil and dispersant treatment	16	16	4.73	6.55
coral polyp · oil treatment	16	16	4.80	7.81
coral polyp · dispersant treatment	16	16	4.82	10.20
Polyp	10	10	2.98	4.16

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.41
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.72
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.62
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.28
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.22
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.17
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.17
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.74
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.36
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.23
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.97
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.91
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.44
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.44
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.31
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.24
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.17
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.02
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.69
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.40
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.87
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.08
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.79
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.54
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.23
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.20
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.04
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.97
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.89
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.79
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.45
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.43
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.32
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.16
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.98
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.88
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.50
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.06
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.67
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.55
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.36
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.22
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.12
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.37
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.03
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.98
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.78
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.64
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.36
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.11
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.90
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.55
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.54
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.01
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.43
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.26
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.17
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.11
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.98
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.91
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.62
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.44
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.29
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.13
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.50
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.72
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.08
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.81
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.39
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.39
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.32
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.58
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.34
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.92
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.51
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.39
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.04
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.04
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.45
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.44
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.19
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.16
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.82
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.20
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.38
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.99
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.91
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.19
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.48
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.47
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.85
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.80
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.43
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.13
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.09
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.48
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.19
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.27
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.24
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.16
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.01
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.65
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.20
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.96
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.77
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.69
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	2.41
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.22
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.69

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.