Gene detail

Detailed information of OS493_026444-T1 in Lophelia pertusa

Genomic Location: scaffold_136:691337...734993
NR annotation: KAJ7371343.1, biogenesis of lysosome- organelles complex 1 subunit 1 [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
Q2NKW0	Biogenesis of lysosome-related organelles complex 1 subunit 1 OS=Bos taurus OX=9913 GN=BLOC1S1 PE=2 SV=1
O55102	Biogenesis of lysosome-related organelles complex 1 subunit 1 OS=Mus musculus OX=10090 GN=Bloc1s1 PE=1 SV=2
D3ZKU7	Biogenesis of lysosome-related organelles complex 1 subunit 1 OS=Rattus norvegicus OX=10116 GN=Bloc1s1 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006899 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06320 all species →	GCN5L1	GCN5-like protein 1 (GCN5L1)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR009395 all species →	Family	Biogenesis of lysosome-related organelles complex 1 subunit 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13073 all species →	BLOC-1 COMPLEX SUBUNIT 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016197 all species →	Biological Process	endosomal transport	Interproscan
GO:0031083 all species →	Cellular Component	BLOC-1 complex	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
K20185	BLOC1S1; biogenesis of lysosome-related organelles complex 1 subunit 1	-	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_026444-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

73.8Max TPM

35.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	37.09	54.85
polyp at pH7 6	18	18	37.37	63.61
coral polyp · control treatment	16	16	34.97	49.37
coral polyp · oil and dispersant treatment	16	16	28.69	43.55
coral polyp · oil treatment	16	16	40.75	49.47
coral polyp · dispersant treatment	16	16	25.31	40.87
Polyp	10	10	42.98	73.81

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.85
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.13
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.07
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.36
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.22
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.86
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.51
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.27
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.11
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.94
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.41
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.38
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.27
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.82
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.21
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.49
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.38
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.45
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	63.61
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	62.16
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.46
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.02
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.00
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.68
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.25
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.49
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.23
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.23
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.36
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.84
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.01
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.58
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.66
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.39
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.70
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.37
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.29
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.44
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.63
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.27
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.82
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.39
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.00
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.62
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.85
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.01
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.74
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.59
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.72
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.01
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.75
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.55
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.06
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.43
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.04
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.93
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.79
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.11
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.26
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.82
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.50
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.29
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.81
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.41
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.40
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.22
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.41
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.47
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.09
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.30
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.16
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.51
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.29
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.99
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.56
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.44
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.36
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.31
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.67
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.07
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.54
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.10
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.06
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.87
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.32
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.73
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.68
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.27
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.95
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.36
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.73
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.47
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.26
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.33
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.78
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.16
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.18
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.57
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.28
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	73.81
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	56.90
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	55.31
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	49.94
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	43.19
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	39.68
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	31.46
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	30.39
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	28.19
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	20.90

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.