Gene detail

Detailed information of OS493_022628-T1 in Lophelia pertusa

Genomic Location: scaffold_95:365512...367380
NR annotation: KAJ7357818.1, Menin [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
Q0P5I0	Menin OS=Bos taurus OX=9913 GN=MEN1 PE=2 SV=1
A2SXS5	Menin OS=Canis lupus familiaris OX=9615 GN=MEN1 PE=2 SV=2
O00255	Menin OS=Homo sapiens OX=9606 GN=MEN1 PE=1 SV=5

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009499 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05053 all species →	Menin	Menin	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007747 all species →	Family	Menin	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12693 all species →	MENIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0000403 all species →	Molecular Function	Y-form DNA binding	Interproscan
GO:0000785 all species →	Cellular Component	chromatin	Interproscan
GO:0000976 all species →	Molecular Function	transcription cis-regulatory region binding	Interproscan
GO:0003682 all species →	Molecular Function	chromatin binding	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0008285 all species →	Biological Process	negative regulation of cell population proliferation	Interproscan
GO:0035097 all species →	Cellular Component	histone methyltransferase complex	Interproscan
GO:0045786 all species →	Biological Process	negative regulation of cell cycle	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_022628-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_022628-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

19.2Max TPM

6.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.92	12.23
polyp at pH7 6	18	18	6.89	13.43
coral polyp · control treatment	16	16	8.01	16.19
coral polyp · oil and dispersant treatment	16	16	6.84	19.16
coral polyp · oil treatment	16	16	7.46	14.37
coral polyp · dispersant treatment	16	16	5.61	10.86
Polyp	10	9	2.56	5.97

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	-	12.23
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.48
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.29
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.95
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.28
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.78
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.13
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.64
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.37
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.19
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.15
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.10
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.10
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.03
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.01
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.51
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.57
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.67
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.43
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.46
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.54
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.65
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.27
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.18
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.06
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.93
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.75
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.63
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.44
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.19
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.93
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.95
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.31
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.17
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.16
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.93
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.19
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.94
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.52
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.79
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.41
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.96
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.41
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.63
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.54
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.49
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.27
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.66
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.26
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.85
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.63
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.64
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.16
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.65
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.43
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.96
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.95
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.88
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.87
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.85
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.80
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.79
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.34
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.92
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.55
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.74
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.91
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.68
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.37
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.82
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.91
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.13
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.45
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.16
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.73
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.69
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.46
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.44
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.17
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.23
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.64
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.05
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.78
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.38
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.86
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.73
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.34
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.88
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.35
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.07
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.64
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.23
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.22
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.03
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.46
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.86
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.82
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.99
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.88
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.43
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.97
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.80
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.46
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.12
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.26
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.77
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.38
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.26
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.62
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.