Gene detail

Detailed information of OS493_006483-T1 in Lophelia pertusa

Genomic Location: scaffold_13:3764471...3766747
NR annotation: KAJ7393500.1, Bardet-Biedl syndrome 1 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
Q8NFJ9	BBSome complex member BBS1 OS=Homo sapiens OX=9606 GN=BBS1 PE=1 SV=1
Q3V3N7	BBSome complex member BBS1 OS=Mus musculus OX=10090 GN=Bbs1 PE=1 SV=1
Q9NEZ7	BBSome complex member BBS1 OS=Caenorhabditis elegans OX=6239 GN=bbs-1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007040 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14779 all species →	BBS1	Ciliary BBSome complex subunit 1	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011047 all species →	Homologous_superfamily	Quinoprotein alcohol dehydrogenase-like superfamily	Interproscan
IPR028784 all species →	Family	Bardet-Biedl syndrome 1 protein	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR032728 all species →	Domain	Bardet-Biedl syndrome 1, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR20870 all species →	BARDET-BIEDL SYNDROME 1 PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005113 all species →	Molecular Function	patched binding	Interproscan
GO:0005119 all species →	Molecular Function	smoothened binding	Interproscan
GO:0005813 all species →	Cellular Component	centrosome	Interproscan
GO:0005930 all species →	Cellular Component	axoneme	Interproscan
GO:0034464 all species →	Cellular Component	BBSome	Interproscan
GO:0061512 all species →	Biological Process	protein localization to cilium	Interproscan
GO:1905515 all species →	Biological Process	non-motile cilium assembly	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	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
K16746	BBS1; Bardet-Biedl syndrome 1 protein	-	Cilium and associated proteins	ko03037	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_006483-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

59.7Max TPM

9.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	6.95	10.03
polyp at pH7 6	18	18	6.69	8.49
coral polyp · control treatment	16	16	12.88	59.72
coral polyp · oil and dispersant treatment	16	16	15.11	44.90
coral polyp · oil treatment	16	16	9.41	12.29
coral polyp · dispersant treatment	16	16	6.91	16.27
Polyp	10	10	6.33	9.41

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.03
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.37
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.23
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.99
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.15
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.45
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.98
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.86
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.50
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.45
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.27
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.24
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.23
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.06
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.95
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.87
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.56
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.98
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.49
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.47
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.79
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.69
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.30
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.25
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.05
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.95
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.84
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.75
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.71
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.67
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.49
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.33
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.94
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.81
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.67
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.20
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.72
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.24
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.96
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.16
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.30
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.84
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.31
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.83
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.68
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.98
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.53
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.43
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.18
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.30
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.03
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.62
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.90
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.57
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.04
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.79
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.41
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.04
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.50
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.29
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.24
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.69
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.47
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.15
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.03
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.92
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.49
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.29
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.29
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.13
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.66
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.00
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.68
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.30
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.12
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.25
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.13
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.07
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.04
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.57
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.97
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.20
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.59
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.54
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.27
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.32
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.84
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.73
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.15
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.73
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.71
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.23
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.25
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.91
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.60
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.43
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.88
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.90
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.60
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.41
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.22
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.16
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.05
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.72
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.63
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.58
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.59
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.32
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1.60

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.