Gene detail

Detailed information of OS493_011904-T1 in Lophelia pertusa

Genomic Location: scaffold_30:2984679...2985784
NR annotation: KAJ7336682.1, hypothetical protein OS493_011904 [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
P0AF49	UPF0047 protein YjbQ OS=Escherichia coli O157:H7 OX=83334 GN=yjbQ PE=3 SV=1
P0AF48	UPF0047 protein YjbQ OS=Escherichia coli (strain K12) OX=83333 GN=yjbQ PE=3 SV=1
P0A2L2	UPF0047 protein YjbQ OS=Salmonella typhi OX=90370 GN=yjbQ PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007179 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01894 all species →	UPF0047	Uncharacterised protein family UPF0047	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001602 all species →	Family	UPF0047 protein YjbQ-like	Interproscan
IPR035917 all species →	Homologous_superfamily	YjbQ-like superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR30615 all species →	UNCHARACTERIZED PROTEIN YJBQ-RELATED	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_011904-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_011904-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_011904-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

44.2Max TPM

16.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	21.35	29.05
polyp at pH7 6	18	18	22.53	33.09
coral polyp · control treatment	16	16	12.97	20.45
coral polyp · oil and dispersant treatment	16	15	8.10	15.08
coral polyp · oil treatment	16	16	14.26	31.88
coral polyp · dispersant treatment	16	16	9.31	20.17
Polyp	10	10	25.19	44.18

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	-	29.05
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.96
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.45
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.57
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.47
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.13
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.24
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.13
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.90
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.75
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.61
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.48
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.44
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.64
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.47
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.45
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.86
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.61
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.09
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.32
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.01
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.95
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.72
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.91
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.85
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.40
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.42
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.67
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.88
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.75
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.65
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.38
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.71
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.59
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.74
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.54
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.45
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.97
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.26
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.04
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.90
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.36
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.51
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.34
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.29
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.44
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.85
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.71
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.61
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.90
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.82
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.11
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.08
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.28
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.53
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.91
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.73
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.67
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.25
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.14
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.02
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.59
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.02
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.42
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.22
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.19
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.58
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.88
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.79
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.16
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.78
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.67
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.66
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.21
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.98
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.72
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.98
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.93
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.12
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.95
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.20
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.17
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.01
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.17
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.00
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.81
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.36
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.73
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.20
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.54
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.41
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.39
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.38
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.47
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.37
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.30
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.60
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.28
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.87
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	44.18
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	37.85
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	30.40
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	28.26
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	27.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	23.51
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	19.65
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	16.54
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	14.19
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	10.32

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.