Gene detail

Detailed information of OS493_009127-T1 in Lophelia pertusa

Genomic Location: scaffold_22:354285...354861
NR annotation: KAJ7373805.1, 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
Q54KD1	Probable lysosomal cobalamin transporter OS=Dictyostelium discoideum OX=44689 GN=lmbrd1 PE=3 SV=1

Gene family

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

Pfam domain

No Pfam domain signature was detected for OS493_009127-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR050854 all species →	Family	Lysosomal Cobalamin Transport Escort Protein LMBD1	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_009127-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_009127-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

85.2Max TPM

32.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	33.85	61.30
polyp at pH7 6	18	18	33.61	70.80
coral polyp · control treatment	16	16	39.27	71.13
coral polyp · oil and dispersant treatment	16	16	29.58	45.44
coral polyp · oil treatment	16	16	37.47	55.55
coral polyp · dispersant treatment	16	16	22.05	39.15
Polyp	10	10	34.05	85.21

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	-	61.30
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.78
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.46
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.74
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.61
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.15
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.15
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.52
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.26
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.05
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.45
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.56
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.05
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.78
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.84
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.69
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.84
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.05
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	70.80
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.09
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.05
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.33
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.17
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.71
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.11
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.39
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.37
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.36
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.34
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.58
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.56
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.73
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.76
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.42
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.19
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.07
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	71.13
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.20
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.28
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.54
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.58
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.38
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.49
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.01
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.89
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.81
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.40
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.16
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.37
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.15
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.66
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.27
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.44
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.99
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.80
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.77
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.60
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.31
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.34
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.32
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.25
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.32
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.75
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.09
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.05
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.14
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.46
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.71
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	55.55
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.46
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.16
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.87
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.50
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.18
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.64
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.18
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.06
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.10
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.62
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.84
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.03
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.95
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.32
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.15
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.11
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.77
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.04
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.11
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.01
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.65
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.58
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.53
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.39
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.16
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.05
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.04
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.02
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.74
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.52
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	85.21
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	66.08
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	47.64
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	32.35
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	30.41
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	27.29
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	18.42
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	16.14
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8.67
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.25

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.