Gene detail

Detailed information of OS493_032459-T1 in Lophelia pertusa

Genomic Location: scaffold_241:551465...553245
NR annotation: KAJ7389299.1, SET domain-containing protein 4 [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
P58467	SET domain-containing protein 4 OS=Mus musculus OX=10090 GN=Setd4 PE=1 SV=2
Q9NVD3	SET domain-containing protein 4 OS=Homo sapiens OX=9606 GN=SETD4 PE=1 SV=1
A0A140C435	SET domain-containing protein 4 OS=Artemia parthenogenetica OX=6663 GN=SETD4 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007987 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00856 all species →	SET	SET domain	Family	Interproscan
PF09273 all species →	Rubis-subs-bind	Rubisco LSMT substrate-binding	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR044429 all species →	Domain	SETD4, SET domain	Interproscan
IPR036464 all species →	Homologous_superfamily	Rubisco LSMT, substrate-binding domain superfamily	Interproscan
IPR001214 all species →	Domain	SET domain	Interproscan
IPR050600 all species →	Family	SETD3/SETD6 methyltransferase	Interproscan
IPR046341 all species →	Homologous_superfamily	SET domain superfamily	Interproscan
IPR015353 all species →	Domain	Rubisco LSMT, substrate-binding domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13271 all species →	UNCHARACTERIZED PUTATIVE METHYLTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016279 all species →	Molecular Function	protein-lysine N-methyltransferase activity	Interproscan
GO:0018023 all species →	Biological Process	peptidyl-lysine trimethylation	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0018026 all species →	Biological Process	peptidyl-lysine monomethylation	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
K27277	SETD4; SET domain-containing protein 4	EC:2.1.1.- EC:2.1.1.364	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_032459-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

103TPM > 0

7Conditions

5.4Max TPM

0.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	0.88	2.10
polyp at pH7 6	18	16	0.83	2.71
coral polyp · control treatment	16	16	1.21	2.33
coral polyp · oil and dispersant treatment	16	16	0.95	5.36
coral polyp · oil treatment	16	16	1.00	1.88
coral polyp · dispersant treatment	16	14	0.28	0.71
Polyp	10	8	1.02	2.17

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.10
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.44
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.19
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.12
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.04
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.02
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.99
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.95
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.92
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.92
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.72
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.70
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.68
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.58
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.58
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.52
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.44
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.71
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.83
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.09
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.06
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.98
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.94
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.93
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.93
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.83
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.76
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.74
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.64
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.54
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.37
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.33
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.30
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.33
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.92
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.85
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.60
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.57
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.51
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.36
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.22
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.21
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.85
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.85
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.83
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.54
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.48
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.20
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.36
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.55
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.18
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.15
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.89
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.82
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.62
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.57
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.50
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.49
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.47
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.46
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.34
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.32
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.28
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.25
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.88
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.35
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.24
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.21
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.17
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.14
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.12
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.00
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.95
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.95
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.95
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.76
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.72
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.70
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.52
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.37
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.71
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.65
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.47
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.39
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.32
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.30
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.28
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.26
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.25
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.23
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.17
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.15
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.13
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.08
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.17
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.41
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.40
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.34
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.16
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.11
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.85
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.75
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00
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.