Gene detail

Detailed information of OS493_038326-T1 in Lophelia pertusa

Genomic Location: scaffold_556:8477...9641
NR annotation: KAJ7369524.1, histone H4-K16 acetylation [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009933 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16685 all species →	zf-RING_10	zinc RING finger of MSL2	Domain	Interproscan
PF16682 all species →	MSL2-CXC	CXC domain of E3 ubiquitin-protein ligase MSL2	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR037922 all species →	Family	E3 ubiquitin-protein ligase MSL2	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR017907 all species →	Conserved_site	Zinc finger, RING-type, conserved site	Interproscan
IPR032043 all species →	Domain	E3 ubiquitin-protein ligase Msl2, zinc RING finger	Interproscan
IPR033467 all species →	Domain	Tesmin/TSO1-like CXC domain	Interproscan
IPR032049 all species →	Domain	E3 ubiquitin-protein ligase Msl2, CXC domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16048 all species →	MSL2-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016567 all species →	Biological Process	protein ubiquitination	Interproscan
GO:0043984 all species →	Biological Process	obsolete histone H4-K16 acetylation	Interproscan
GO:0061630 all species →	Molecular Function	ubiquitin protein ligase activity	Interproscan
GO:0072487 all species →	Cellular Component	MSL complex	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
K13164	MSL2; male-specific lethal 2	-	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_038326-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

109TPM > 0

7Conditions

10.5Max TPM

4.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.40	6.47
polyp at pH7 6	18	17	4.54	8.17
coral polyp · control treatment	16	16	6.27	9.09
coral polyp · oil and dispersant treatment	16	16	5.34	7.38
coral polyp · oil treatment	16	16	6.20	10.54
coral polyp · dispersant treatment	16	16	2.29	4.63
Polyp	10	10	2.95	5.07

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.47
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.37
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.33
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.62
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.61
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.55
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.51
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.35
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.08
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.92
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.79
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.49
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.42
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.41
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.95
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.88
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.42
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.17
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.99
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.14
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.68
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.49
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.34
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.30
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.10
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.81
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.48
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.97
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.89
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.82
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.72
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.33
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.85
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.70
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.09
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.05
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.29
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.89
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.80
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.30
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.51
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.38
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.04
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.66
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.56
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.17
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.85
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.09
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.06
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.53
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.38
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.22
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.85
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.65
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.59
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.30
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.18
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.39
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.35
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.85
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.61
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.39
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.29
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.19
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.71
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.42
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.54
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.27
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.66
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.42
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.31
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.19
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.79
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.37
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.01
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.22
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.99
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.81
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.26
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.32
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.29
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.78
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.63
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.46
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.76
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.71
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.14
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.75
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.17
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.04
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.85
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.69
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.49
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.33
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.25
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.85
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.82
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.66
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.07
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.55
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.90
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.97
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.96
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.91
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.88
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.65
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1.36
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.22

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.