Gene detail

Detailed information of OS493_023799-T1 in Lophelia pertusa

Genomic Location: scaffold_107:566621...569734
NR annotation: KAJ7357668.1, hypothetical protein OS493_023799 [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)	OG0008289 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00505 all species →	HMG_box	HMG (high mobility group) box	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR051965 all species →	Family	Chromatin Regulation and Neuronal Gene Expression	Interproscan
IPR009071 all species →	Domain	High mobility group box domain	Interproscan
IPR036910 all species →	Homologous_superfamily	High mobility group box domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46040 all species →	HIGH MOBILITY GROUP PROTEIN 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0010468 all species →	Biological Process	regulation of gene expression	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
K11680	NHP10; non-histone protein 10	-	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_023799-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

37.5Max TPM

12.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	13.15	19.91
polyp at pH7 6	18	18	14.96	26.45
coral polyp · control treatment	16	16	14.69	37.48
coral polyp · oil and dispersant treatment	16	16	10.29	27.78
coral polyp · oil treatment	16	16	13.20	19.41
coral polyp · dispersant treatment	16	16	4.07	8.38
Polyp	10	10	14.70	27.45

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.91
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.82
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.99
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.71
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.33
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.20
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.12
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.55
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.01
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.75
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.01
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.63
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.49
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.37
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.09
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.26
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.15
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.29
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.45
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.68
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.64
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.40
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.05
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.57
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.90
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.45
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.23
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.28
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.64
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.43
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.34
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.58
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.71
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.46
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.07
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.45
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.48
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.27
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.23
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.81
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.26
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.11
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.85
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.06
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.34
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.18
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.39
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.34
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.05
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.04
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.50
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.19
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.78
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.36
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.13
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.03
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.98
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.40
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.86
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.85
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.58
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.36
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.94
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.28
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.17
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.98
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.84
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.17
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.41
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.71
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.45
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.93
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.87
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.42
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.04
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.82
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.99
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.93
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.74
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.48
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.39
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.18
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.57
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.23
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.38
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.79
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.88
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.76
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.71
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.71
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.64
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.56
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.31
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.80
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.26
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.24
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.92
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.62
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.27
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.20
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	27.45
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	23.33
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	15.47
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	15.35
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.90
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	13.22
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	12.70
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	11.84
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.04
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.64

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.