Gene detail

Detailed information of OS493_032756-T1 in Lophelia pertusa

Genomic Location: scaffold_248:259691...277977
NR annotation: KAJ7382796.1, Limb region 1 -like protein [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
Q5U4X7	Limb region 1 protein homolog OS=Xenopus tropicalis OX=8364 GN=lmbr1 PE=2 SV=1
Q7ZUA6	Limb region 1 protein homolog OS=Gallus gallus OX=9031 GN=LMBR1 PE=2 SV=1
Q8WVP7	Limb region 1 protein homolog OS=Homo sapiens OX=9606 GN=LMBR1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006399 (this species only) · gene tree & orthology

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
IPR008075 all species →	Family	Lipocalin-interacting membrane receptor	Interproscan
IPR006876 all species →	Family	LMBR1-like membrane protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12625 all species →	LIPOCALIN-1 INTERACTING MEMBRANE RECEPTOR LIMR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004888 all species →	Molecular Function	transmembrane signaling receptor activity	Interproscan
GO:0005887 all species →	Cellular Component	plasma membrane	Interproscan
GO:0007165 all species →	Biological Process	signal transduction	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
K25215	LMBR1L; protein LMBR1L	-	Ubiquitin system	ko04121	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_032756-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

40.2Max TPM

18.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	17.91	26.05
polyp at pH7 6	18	18	18.23	30.08
coral polyp · control treatment	16	16	23.47	40.18
coral polyp · oil and dispersant treatment	16	16	19.87	29.28
coral polyp · oil treatment	16	16	23.19	38.32
coral polyp · dispersant treatment	16	16	13.50	21.83
Polyp	10	10	14.35	21.85

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.05
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.95
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.45
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.04
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.63
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.98
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.17
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.98
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.15
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.07
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.09
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.32
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.31
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.57
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.14
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.51
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.38
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.60
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.08
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.79
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.46
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.22
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.45
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.81
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.97
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.45
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.07
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.41
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.01
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.74
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.50
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.50
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.39
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.32
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.88
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.18
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.14
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.63
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.36
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.59
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.76
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.71
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.50
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.28
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.17
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.06
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.55
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.41
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.84
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.98
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.32
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.28
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.23
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.90
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.68
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.28
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.72
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.68
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.85
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.17
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.39
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.94
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.51
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.40
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.77
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.18
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.93
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.32
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.18
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.36
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.75
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.06
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.71
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.21
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.63
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.19
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.68
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.64
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.14
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.19
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.54
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.07
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.37
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.83
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.50
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.45
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.70
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.06
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.89
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.31
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.96
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.74
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.62
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.91
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.02
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.64
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.15
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.25
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	21.85
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	20.68
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	18.22
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	18.08
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	15.91
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	15.59
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.06
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	10.22
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.87
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.96

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.