Gene detail

Detailed information of OS493_009126-T1 in Lophelia pertusa

Genomic Location: scaffold_22:347440...353216
NR annotation: KAJ7373804.1, putative lysosomal cobalamin transporter [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
A7RM45	Probable lysosomal cobalamin transporter OS=Nematostella vectensis OX=45351 GN=v1g160387 PE=3 SV=1
Q5PR61	Lysosomal cobalamin transport escort protein LMBD1 OS=Danio rerio OX=7955 GN=lmbrd1 PE=2 SV=1
Q0VGV9	Lysosomal cobalamin transport escort protein LMBD1 OS=Xenopus tropicalis OX=8364 GN=lmbrd1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005658 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04791 all species →	LMBR1	LMBR1-like membrane protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR050854 all species →	Family	Lysosomal Cobalamin Transport Escort Protein LMBD1	Interproscan
IPR006876 all species →	Family	LMBR1-like membrane protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16130 all species →	LYSOSOMAL COBALAMIN TRANSPORTER-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005774 all species →	Cellular Component	vacuolar membrane	Interproscan
GO:0072665 all species →	Biological Process	protein localization to vacuole	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_009126-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_009126-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

54.5Max TPM

18.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	16.16	32.86
polyp at pH7 6	18	18	16.55	28.25
coral polyp · control treatment	16	16	24.04	54.50
coral polyp · oil and dispersant treatment	16	16	19.96	33.92
coral polyp · oil treatment	16	16	20.84	34.28
coral polyp · dispersant treatment	16	16	17.95	30.37
Polyp	10	10	13.86	37.51

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.86
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.38
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.49
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.11
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.23
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.87
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.02
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.84
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.07
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.57
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.46
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.63
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.40
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.80
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.01
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.42
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.57
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.12
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.25
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.31
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.88
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.39
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.87
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.49
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.71
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.69
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.10
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.53
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.15
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.53
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.31
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.43
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.43
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.33
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.37
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.10
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.50
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.63
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.06
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.91
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.52
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.95
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.91
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.72
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.97
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.02
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.83
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.18
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.96
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.85
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.50
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.09
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.92
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.89
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.15
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.53
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.44
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.47
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.16
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.36
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.03
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.22
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.14
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.06
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.52
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.98
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.29
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.21
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.28
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.30
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.98
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.38
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.76
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.05
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.46
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.25
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.81
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.75
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.33
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.06
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.20
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.89
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.93
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.93
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.37
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.52
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.06
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.38
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.62
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.72
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.45
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.90
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.74
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.86
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.59
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.01
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.08
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.80
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.03
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.04
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	37.51
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	25.23
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	20.04
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	14.32
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	13.70
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.55
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.52
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.48
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.46
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.77

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.