Gene detail

Detailed information of OS493_039244-T1 in Lophelia pertusa

Genomic Location: scaffold_1014:7212...18154
NR annotation: KAJ7314693.1, Histone deacetylase 11 [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
Q91WA3	Histone deacetylase 11 OS=Mus musculus OX=10090 GN=Hdac11 PE=1 SV=1
Q96DB2	Histone deacetylase 11 OS=Homo sapiens OX=9606 GN=HDAC11 PE=1 SV=1
Q9GKU5	Histone deacetylase 11 OS=Macaca fascicularis OX=9541 GN=HDAC11 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005993 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09358 all species →	E1_UFD	Ubiquitin fold domain	Domain	Interproscan
PF00850 all species →	Hist_deacetyl	Histone deacetylase domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR018965 all species →	Domain	Ubiquitin-activating enzyme E1, C-terminal	Interproscan
IPR050284 all species →	Family	Histone deacetylase and polyamine deacetylase	Interproscan
IPR023696 all species →	Homologous_superfamily	Ureohydrolase domain superfamily	Interproscan
IPR023801 all species →	Domain	Histone deacetylase domain	Interproscan
IPR037138 all species →	Homologous_superfamily	Histone deacetylase domain superfamily	Interproscan
IPR038252 all species →	Homologous_superfamily	Ubiquitin-activating enzyme E1, C-terminal domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10625 all species →	HISTONE DEACETYLASE HDAC1-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000118 all species →	Cellular Component	histone deacetylase complex	Interproscan
GO:0004407 all species →	Molecular Function	histone deacetylase activity	Interproscan
GO:0016575 all species →	Biological Process	obsolete histone deacetylation	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_039244-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_039244-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

96.7Max TPM

46.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	53.70	93.88
polyp at pH7 6	18	18	55.51	96.67
coral polyp · control treatment	16	16	40.80	67.41
coral polyp · oil and dispersant treatment	16	16	39.86	69.66
coral polyp · oil treatment	16	16	41.33	72.50
coral polyp · dispersant treatment	16	16	28.07	88.97
Polyp	10	10	71.86	95.87

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	93.88
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	87.96
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	62.77
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.24
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	59.71
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.71
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.46
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.26
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.42
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.52
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.36
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.23
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.87
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.27
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.43
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.11
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.93
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.48
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	96.67
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	90.20
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	67.06
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	60.63
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	58.77
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	58.48
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	58.08
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.85
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.44
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.03
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.79
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.06
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.97
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.25
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.99
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.88
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.51
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.51
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	67.41
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.17
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.80
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.26
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.05
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.06
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.29
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.99
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.90
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.27
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.85
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.63
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.50
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.74
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.37
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.46
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.66
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.53
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.52
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.38
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.04
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.70
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.08
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.85
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.99
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.97
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.96
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.71
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.27
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.99
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.53
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.51
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.50
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	63.52
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	56.29
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	55.86
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.09
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.25
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.76
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.05
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.07
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.50
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.48
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.40
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.24
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.57
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.99
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.78
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	88.97
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.60
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.42
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.19
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.78
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.65
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.78
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.69
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.58
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.48
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.08
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.27
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.05
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.39
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.53
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.70
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	95.87
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	92.06
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	88.23
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	78.34
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	71.17
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	65.11
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	62.18
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	59.38
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	59.14
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	47.12

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.