Gene detail

Detailed information of OS493_016139-T1 in Lophelia pertusa

Genomic Location: scaffold_49:1180527...1182987
NR annotation: KAJ7391849.1, Oligosaccharide translocation protein rft1 [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
Q0D2E8	Man(5)GlcNAc(2)-PP-dolichol translocation protein RFT1 OS=Xenopus tropicalis OX=8364 GN=rft1 PE=2 SV=1
Q96AA3	Man(5)GlcNAc(2)-PP-dolichol translocation protein RFT1 OS=Homo sapiens OX=9606 GN=RFT1 PE=1 SV=1
Q8C3B8	Man(5)GlcNAc(2)-PP-dolichol translocation protein RFT1 OS=Mus musculus OX=10090 GN=Rft1 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007435 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04506 all species →	Rft-1	Rft protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007594 all species →	Family	RFT1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13117 all species →	ENDOPLASMIC RETICULUM MULTISPAN TRANSMEMBRANE PROTEIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005789 all species →	Cellular Component	endoplasmic reticulum membrane	Interproscan
GO:0006488 all species →	Biological Process	dolichol-linked oligosaccharide biosynthetic process	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0034203 all species →	Biological Process	glycolipid translocation	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
K06316	RFT1; oligosaccharide translocation protein RFT1	-	Transporters	ko02000	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_016139-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

7.5Max TPM

2.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	2.87	5.42
polyp at pH7 6	18	18	2.92	5.47
coral polyp · control treatment	16	16	2.99	4.79
coral polyp · oil and dispersant treatment	16	16	2.11	4.91
coral polyp · oil treatment	16	16	3.24	7.51
coral polyp · dispersant treatment	16	16	1.46	3.32
Polyp	10	9	2.14	3.77

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.42
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.87
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.51
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.39
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.93
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.60
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.95
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.68
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.46
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.43
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.29
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.14
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.07
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.77
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.74
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.73
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.63
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.14
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.47
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.33
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.87
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.61
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.08
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.99
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.93
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.84
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.74
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.62
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.57
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.38
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.37
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.29
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.16
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.16
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.75
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.49
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.79
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.47
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.39
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.30
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.13
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.03
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.43
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.93
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.81
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.58
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.54
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.43
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.53
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.42
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.12
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.94
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.91
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.90
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.85
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.52
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.29
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.14
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.10
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.09
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.97
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.61
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.61
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.55
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.50
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.45
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.15
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.13
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.51
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.16
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.38
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.37
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.76
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.57
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.38
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.20
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.88
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.57
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.52
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.24
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.95
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.84
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.32
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.25
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.32
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.09
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.97
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.48
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.44
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.42
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.34
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.33
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.12
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.11
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.07
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.89
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.85
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.79
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.78
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.33
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.77
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.76
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.44
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.30
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.56
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.06
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.15
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.72
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.60
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.