Gene detail

Detailed information of OS493_006196-T1 in Lophelia pertusa

Genomic Location: scaffold_13:902380...913363
NR annotation: KAJ7393227.1, hypothetical protein OS493_006196 [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)	OG0004408 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14478 all species →	DUF4430	Domain of unknown function (DUF4430)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027954 all species →	Domain	Transcobalamin-like, C-terminal domain	Interproscan
IPR051588 all species →	Family	Eukaryotic Cobalamin Transport	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10559 all species →	TRANSCOBALAMIN-1/GASTRIC INTRINSIC FACTOR	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_006196-T1. This gene does have a gene model — the search simply returned no hit.

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_006196-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_006196-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

372.8Max TPM

66.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	24.34	53.84
polyp at pH7 6	18	17	20.48	54.41
coral polyp · control treatment	16	16	95.34	254.14
coral polyp · oil and dispersant treatment	16	16	110.30	339.90
coral polyp · oil treatment	16	16	75.50	372.82
coral polyp · dispersant treatment	16	16	94.88	360.56
Polyp	10	10	45.24	120.95

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.84
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.03
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.55
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.12
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.56
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.62
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.41
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.23
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.32
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.73
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.85
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.55
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.50
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.56
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.90
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.72
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.61
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.41
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.91
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.59
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.06
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.79
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.81
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.94
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.43
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.80
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.99
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.35
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.99
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.48
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.17
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.59
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.90
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.51
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	254.14
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	202.88
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	188.29
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	168.48
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	118.48
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	103.06
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	100.98
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	87.40
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	72.80
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	63.40
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.90
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.73
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.69
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.85
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.62
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.73
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	339.90
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	225.13
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	216.05
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	164.59
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	138.72
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	96.21
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.37
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	86.72
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	74.04
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	73.03
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	70.50
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.79
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.23
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.22
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.77
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.57
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	372.82
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	176.48
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	111.16
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	98.70
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	75.73
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.43
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.31
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.58
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.16
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.19
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.86
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.90
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.92
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.34
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.70
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.68
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	360.56
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	340.31
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	140.36
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	116.55
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	88.26
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	86.91
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	83.10
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	71.17
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.26
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.84
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.41
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.70
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.77
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.80
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.30
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.74
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	120.95
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	118.57
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	85.00
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	83.97
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	25.30
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.82
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.08
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.60
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.80
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.26

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.