Gene detail

Detailed information of OS493_003861-T1 in Lophelia pertusa

Genomic Location: scaffold_7:6561631...6565917
NR annotation: KAJ7394181.1, biogenesis of lysosome- organelles complex 1 subunit 6 [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
Q9UL45	Biogenesis of lysosome-related organelles complex 1 subunit 6 OS=Homo sapiens OX=9606 GN=BLOC1S6 PE=1 SV=1
Q08DU8	Biogenesis of lysosome-related organelles complex 1 subunit 6 OS=Bos taurus OX=9913 GN=BLOC1S6 PE=1 SV=1
Q4V8A6	Biogenesis of lysosome-related organelles complex 1 subunit 6 OS=Rattus norvegicus OX=10116 GN=Bloc1s6 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009511 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14712 all species →	Snapin_Pallidin	Snapin/Pallidin	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR017242 all species →	Family	BLOC-1 complex, pallidin subunit	Interproscan
IPR028119 all species →	Family	Snapin/Pallidin/Snn1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31328 all species →	BIOGENESIS OF LYSOSOME-RELATED ORGANELLES COMPLEX 1 SUBUNIT 6	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0030133 all species →	Cellular Component	transport vesicle	Interproscan
GO:0031083 all species →	Cellular Component	BLOC-1 complex	Interproscan
GO:0046907 all species →	Biological Process	intracellular transport	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
K20188	BLOC1S6; biogenesis of lysosome-related organelles complex 1 subunit 6	-	Membrane trafficking	ko04131	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_003861-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

38.5Max TPM

17.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	19.20	27.89
polyp at pH7 6	18	18	19.11	32.35
coral polyp · control treatment	16	16	20.21	30.78
coral polyp · oil and dispersant treatment	16	16	15.80	28.26
coral polyp · oil treatment	16	16	20.54	38.46
coral polyp · dispersant treatment	16	16	12.83	25.47
Polyp	10	9	17.40	24.32

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	-	27.89
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.82
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.13
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.29
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.16
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.12
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.11
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.90
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.58
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.89
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.29
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.66
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.05
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.79
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.91
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.56
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.24
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.20
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.35
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.71
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.51
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.74
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.40
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.72
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.85
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.52
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.15
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.12
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.02
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.04
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.01
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.38
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.52
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.93
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.40
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.67
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.78
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.69
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.42
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.92
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.82
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.54
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.43
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.31
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.51
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.54
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.86
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.69
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.42
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.29
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.62
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.49
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.26
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.83
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.11
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.60
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.41
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.35
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.16
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.37
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.80
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.28
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.41
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.86
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.77
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.50
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.93
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.19
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.46
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.14
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.61
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.92
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.00
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.53
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.65
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.82
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.13
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.38
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.55
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.54
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.29
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.62
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.77
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.27
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.47
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.33
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.34
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.52
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.87
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.67
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.55
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.04
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.89
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.29
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.85
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.51
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.02
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.30
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.12
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.57
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	24.32
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	23.11
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	22.25
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	21.95
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	21.56
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	20.50
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	17.81
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	13.62
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.85
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.