Gene detail

Detailed information of OS493_032755-T1 in Lophelia pertusa

Genomic Location: scaffold_248:257121...257564
NR annotation: KAJ7382795.1, hypothetical protein OS493_032755 [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)	OG0013333 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_032755-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR000116 all species →	Family	High mobility group protein HMGA	Interproscan
IPR017956 all species →	Conserved_site	AT hook, DNA-binding motif	Interproscan

PANTHER

No PANTHER signature was detected for OS493_032755-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

GO term	Category	Description	Source
GO:0000785 all species →	Cellular Component	chromatin	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	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_032755-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_032755-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

410.7Max TPM

124.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	113.42	131.52
polyp at pH7 6	18	18	115.68	163.08
coral polyp · control treatment	16	16	152.53	256.86
coral polyp · oil and dispersant treatment	16	16	102.52	262.53
coral polyp · oil treatment	16	16	168.52	410.68
coral polyp · dispersant treatment	16	16	98.23	217.23
Polyp	10	10	124.85	227.59

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	131.52
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	129.77
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	128.62
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	125.95
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	122.15
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	122.13
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	117.86
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	117.46
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	114.25
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	111.29
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	111.01
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	109.51
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	106.68
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	103.40
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	103.12
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	102.19
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	93.48
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	91.10
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	163.08
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	157.78
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	156.65
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	151.23
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	150.60
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	134.83
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	121.02
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	112.66
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	105.64
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	100.73
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	98.08
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	97.18
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	96.89
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	93.32
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	87.23
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	86.88
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	84.39
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	84.01
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	256.86
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	237.41
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	203.74
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	182.62
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	176.08
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	174.45
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	171.93
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	169.24
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	152.53
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	149.91
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	124.36
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	119.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	103.40
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	94.63
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	81.91
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.44
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	262.53
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	212.29
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	185.50
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	157.58
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	130.32
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	121.37
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	96.82
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	89.47
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	75.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.48
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.33
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.95
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.90
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.53
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.09
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.19
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	410.68
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	301.27
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	265.51
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	237.81
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	189.44
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	176.69
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	154.50
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	136.71
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	135.59
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	124.93
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	122.53
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	112.38
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	87.95
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.06
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	83.50
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	71.85
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	217.23
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	186.57
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	136.83
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	132.53
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	125.21
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	120.30
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	99.09
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	86.19
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	84.44
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	72.12
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.58
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.26
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.60
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.22
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.27
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.27
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	227.59
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	180.53
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	174.12
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	144.99
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	142.22
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	129.98
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	104.53
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	69.80
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	39.40
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	35.31

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.