Gene detail

Detailed information of OS493_011536-T1 in Lophelia pertusa

Genomic Location: scaffold_29:2220320...2220907
NR annotation: KAJ7363254.1, Dystroglycan [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)	OG0003875 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05454 all species →	DAG1	Dystroglycan (Dystrophin-associated glycoprotein 1)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR008465 all species →	Domain	Dystroglycan, C-terminal	Interproscan
IPR030398 all species →	Domain	DG-type SEA domain	Interproscan

PANTHER

No PANTHER signature was detected for OS493_011536-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

GO term	Category	Description	Source
GO:0016010 all species →	Cellular Component	dystrophin-associated glycoprotein 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

No KEGG orthology assignment for OS493_011536-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_011536-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

105.2Max TPM

53.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	40.51	58.03
polyp at pH7 6	18	18	35.35	55.47
coral polyp · control treatment	16	16	67.49	105.20
coral polyp · oil and dispersant treatment	16	16	64.03	88.32
coral polyp · oil treatment	16	16	62.38	90.33
coral polyp · dispersant treatment	16	16	66.63	90.20
Polyp	10	10	30.49	45.64

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.03
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	57.89
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	57.33
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.80
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.50
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.88
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.09
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.69
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.21
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.72
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.09
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.04
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.17
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.86
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.02
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.87
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.71
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.21
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.47
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.41
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.34
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.61
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.58
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.71
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.80
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.34
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.28
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.87
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.30
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.35
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.84
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.70
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.11
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.27
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.42
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.94
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	105.20
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	98.93
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	95.43
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	90.77
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	84.72
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	78.13
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	75.06
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.35
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.22
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.51
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.82
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.52
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.25
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.66
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.86
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.42
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	88.32
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.93
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.26
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	76.45
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	73.10
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.11
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.50
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.07
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	64.83
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.97
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.84
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.57
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.99
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.45
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.77
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.36
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	90.33
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	82.72
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	82.17
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	76.36
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.95
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.58
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.43
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.31
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	63.94
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.17
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.73
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.41
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.07
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.96
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.60
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.43
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	90.20
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	83.44
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	80.52
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	78.58
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	77.49
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	76.82
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	75.84
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	73.69
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	73.56
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.50
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.97
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.05
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	54.29
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.45
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.94
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.82
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	45.64
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	40.12
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	39.74
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	32.52
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	31.56
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	28.49
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	26.51
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	25.36
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	23.72
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	11.24

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.