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Gene: Bloc1s6 (biogenesis of lysosomal organelles complex 1 subunit 6) Rattus norvegicus

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Symbol:

Bloc1s6

Name:

biogenesis of lysosomal organelles complex 1 subunit 6

RGD ID:

1310208

Description:

Predicted to enable actin filament binding activity; molecular adaptor activity; and protein homodimerization activity. Predicted to be involved in several processes, including anterograde synaptic vesicle transport; endosome to melanosome transport; and melanosome transport. Predicted to act upstream of or within several processes, including glutamine family amino acid metabolic process; limbic system development; and protein transport. Predicted to be located in endosome. Predicted to be part of BLOC-1 complex; SNARE complex; and filamentous actin. Predicted to be active in several cellular components, including focal adhesion; microvesicle; and stress fiber. Human ortholog(s) of this gene implicated in Hermansky-Pudlak syndrome 9. Orthologous to human BLOC1S6 (biogenesis of lysosomal organelles complex 1 subunit 6); INTERACTS WITH 17alpha-ethynylestradiol; 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-Tetrachlorodibenzofuran.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

biogenesis of lysosomal organelles complex-1, subunit 6, pallidin; biogenesis of lysosome-related organelles complex 1 subunit 6; BLOC-1 subunit 6; LOC317630; MGC114534; pallid protein homolog; pallidin; pallidin homolog; pallidin homolog (mouse); Pldn

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	3	130,269,979 - 130,280,109 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	3	130,268,442 - 130,281,360 (+)	Ensembl				GRCr8
mRatBN7.2	3	109,816,397 - 109,826,528 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	3	109,816,366 - 109,828,308 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	3	113,712,759 - 113,722,845 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	3	122,308,293 - 122,318,379 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	3	119,968,666 - 119,978,752 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	3	114,869,478 - 114,880,218 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	3	114,869,459 - 114,881,590 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	3	121,407,586 - 121,418,326 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	3	109,706,842 - 109,716,971 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	3	108,694,425 - 108,704,523 (+)	NCBI		Celera
RGSC_v3.1	3	109,612,414 - 109,622,544 (+)	NCBI
Cytogenetic Map	3	q35	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Chediak-Higashi syndrome (ISO)

genetic disease (ISO)

Hermansky-Pudlak syndrome (ISO)

Hermansky-Pudlak syndrome 1 (ISO)

Hermansky-Pudlak syndrome 9 (ISO,ISS)

platelet storage pool deficiency (ISS)

pulmonary emphysema (ISS)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (EXP,ISO)

2,2',4,4'-Tetrabromodiphenyl ether (EXP)

2,3,7,8-tetrachlorodibenzodioxine (ISO)

2,3,7,8-Tetrachlorodibenzofuran (EXP)

2,4-dinitrotoluene (EXP)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

antirheumatic drug (ISO)

arsane (ISO)

arsenic atom (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

benzo[b]fluoranthene (ISO)

benzo[e]pyrene (ISO)

bisphenol A (EXP)

cadmium dichloride (EXP,ISO)

CGP 52608 (ISO)

copper(II) sulfate (ISO)

coumestrol (ISO)

cyclosporin A (ISO)

dicrotophos (ISO)

enzyme inhibitor (ISO)

ethyl methanesulfonate (ISO)

folic acid (ISO)

heroin (ISO)

indole-3-methanol (EXP)

lead(0) (ISO)

methapyrilene (EXP,ISO)

p-toluidine (EXP)

perfluorohexanesulfonic acid (ISO)

phenobarbital (ISO)

propiconazole (ISO)

sodium arsenate (ISO)

sodium arsenite (ISO)

tamoxifen (ISO)

testosterone (ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

triphenyl phosphate (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

actin filament bundle assembly (ISO)

adenosine metabolic process (ISO)

amino acid metabolic process (ISO)

anterograde axonal transport (IEA,ISO,ISS)

anterograde synaptic vesicle transport (IEA,ISO,ISS)

ATP metabolic process (ISO)

blood coagulation (ISO)

bradykinin biosynthetic process (ISO)

cellular response to epidermal growth factor stimulus (ISO)

cilium assembly (ISO)

circadian sleep/wake cycle (ISO)

dentate gyrus development (ISO)

endosome to melanosome transport (IEA,ISO,ISS)

endothelium development (ISO)

gene expression (ISO)

glutamate metabolic process (ISO)

glutamine metabolic process (ISO)

homeostasis of number of cells (ISO)

hypothalamus development (ISO)

intracellular nitric oxide homeostasis (ISO)

kidney development (ISO)

lipid homeostasis (ISO)

lipid metabolic process (ISO)

lung alveolus development (ISO)

lung development (ISO)

melanocyte differentiation (ISO)

melanosome transport (IEA,ISO,ISS)

membrane fusion (ISO)

memory (ISO)

multicellular organism growth (ISO)

neuron projection development (IEA,ISO,ISS)

phospholipid metabolic process (ISO)

pigmentation (ISO)

positive regulation of natural killer cell activation (ISO)

positive regulation of pigment cell differentiation (IEA,ISO,ISS)

protein secretion (ISO)

protein targeting (ISO)

protein transmembrane transport (ISO)

respiratory system process (ISO)

response to acetylcholine (ISO)

response to activity (ISO)

response to xenobiotic stimulus (ISO)

secretion of lysosomal enzymes (ISO)

vasodilation (ISO)

Cellular Component

axon cytoplasm (IEA)

BLOC-1 complex (IBA,IEA,ISO,ISS)

cell-cell contact zone (IEA,ISO)

contractile ring (IEA,ISO)

cytoplasm (IEA,ISO,ISS)

cytoplasmic vesicle (IEA)

endosome (IEA,ISO)

filamentous actin (IEA,ISO)

focal adhesion (IEA,ISO)

membrane (IEA)

microvesicle (IEA,ISO)

ruffle (IEA,ISO)

SNARE complex (ISS)

stress fiber (IEA,ISO)

transport vesicle (IBA,IEA,ISO,ISS)

Molecular Function

actin filament binding (IEA,ISO,ISS)

identical protein binding (IEA,ISO)

molecular adaptor activity (IEA,ISO)

protein binding (ISO)

protein homodimerization activity (IEA,ISO,ISS)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
3.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
4.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
5.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:2379821	PMID:6696991	PMID:7089489	PMID:10610180	PMID:12019270	PMID:12191018	PMID:12477932	PMID:12576321	PMID:15102850	PMID:16189514	PMID:17182842	PMID:19546860
PMID:21998198	PMID:22203680	PMID:25416956	PMID:27927957

Genomics

Comparative Map Data

Bloc1s6
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	3	130,269,979 - 130,280,109 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	3	130,268,442 - 130,281,360 (+)	Ensembl				GRCr8
mRatBN7.2	3	109,816,397 - 109,826,528 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	3	109,816,366 - 109,828,308 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	3	113,712,759 - 113,722,845 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	3	122,308,293 - 122,318,379 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	3	119,968,666 - 119,978,752 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	3	114,869,478 - 114,880,218 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	3	114,869,459 - 114,881,590 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	3	121,407,586 - 121,418,326 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	3	109,706,842 - 109,716,971 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	3	108,694,425 - 108,704,523 (+)	NCBI		Celera
RGSC_v3.1	3	109,612,414 - 109,622,544 (+)	NCBI
Cytogenetic Map	3	q35	NCBI

BLOC1S6
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	15	45,587,123 - 45,609,716 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	15	45,587,214 - 45,615,945 (+)	Ensembl			hg38	GRCh38
GRCh37	15	45,879,321 - 45,901,914 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	15	43,666,709 - 43,689,201 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	15	43,666,708 - 43,689,200	NCBI
Celera	15	22,770,564 - 22,793,057 (+)	NCBI		Celera
Cytogenetic Map	15	q21.1	NCBI
HuRef	15	22,702,017 - 22,724,511 (+)	NCBI		HuRef
CHM1_1	15	45,997,621 - 46,020,116 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	15	43,395,284 - 43,417,878 (+)	NCBI		T2T-CHM13v2.0

Bloc1s6
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	2	122,580,425 - 122,591,407 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	2	122,580,423 - 122,591,395 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	2	122,738,505 - 122,749,487 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	2	122,738,503 - 122,749,475 (+)	Ensembl			mm10	GRCm38
MGSCv37	2	122,564,241 - 122,575,223 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	2	122,429,955 - 122,439,540 (+)	NCBI		MGSCv36	mm8
Celera	2	123,933,064 - 123,944,057 (+)	NCBI		Celera
Cytogenetic Map	2	E5	NCBI
cM Map	2	60.66	NCBI

Bloc1s6
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955409	7,899,601 - 7,913,966 (-)	Ensembl
ChiLan1.0	NW_004955409	7,902,125 - 7,913,966 (-)	NCBI	ChiLan1.0	ChiLan1.0

BLOC1S6
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	16	34,761,845 - 34,845,817 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	15	38,938,562 - 39,022,548 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	15	24,469,225 - 24,553,163 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	15	42,862,114 - 42,882,321 (+)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	15	42,862,112 - 42,882,316 (+)	Ensembl			panPan2	panpan1.1

BLOC1S6
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	30	11,861,119 - 11,949,451 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	30	11,811,339 - 11,937,353 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	30	11,852,612 - 11,967,661 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	30	11,999,081 - 12,114,309 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	30	11,948,076 - 12,141,202 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	30	11,919,258 - 12,035,681 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	30	12,025,057 - 12,141,626 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	30	12,145,073 - 12,262,260 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Bloc1s6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024408640	90,361,030 - 90,378,186 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936471	8,209,057 - 8,226,353 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936471	8,209,091 - 8,226,249 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

BLOC1S6
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	1	126,165,994 - 126,184,858 (-)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	1	126,168,944 - 126,184,813 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	1	140,713,389 - 140,718,531 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

BLOC1S6
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	26	37,605,891 - 37,622,302 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	26	37,604,412 - 37,622,083 (-)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666048	103,442,042 - 103,468,952 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Bloc1s6
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624731	13,777,656 - 13,785,366 (-)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624731	13,775,414 - 13,789,380 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Bloc1s6
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	5	100,827,441 - 100,838,986 (+)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Bloc1s6
75 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	187
Count of miRNA genes:	142
Interacting mature miRNAs:	165
Transcripts:	ENSRNOT00000056083
Prediction methods:	Miranda, Targetscan
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
2301414	Kidm37	Kidney mass QTL 37		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	3	96509147	141509147	Rat
1582238	Bw68	Body weight QTL 68	3.2	0.0064	body mass (VT:0001259)	body weight (CMO:0000012)	3	73592512	136118980	Rat
2302373	Gluco39	Glucose level QTL 39	5.01		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	3	129154923	182114333	Rat
1582239	Epfw1	Epididymal fat weight QTL 1	4.5	0.0006	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	3	73592512	136118980	Rat
70216	Cm14	Cardiac mass QTL 14	2.1		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	3	51581665	184004958	Rat
2292591	Esta4	Estrogen-induced thymic atrophy QTL 4			thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	3	67641776	167835660	Rat
1358362	Srcrt2	Stress Responsive Cort QTL 2	2.78		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	3	58601291	153936591	Rat
1582216	Bw65	Body weight QTL 65	6.3		body mass (VT:0001259)	body weight (CMO:0000012)	3	122654702	136118980	Rat
737818	Hcar12	Hepatocarcinoma resistance QTL 12	2.6		liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	3	49872657	138829559	Rat
1582218	Bw74	Body weight QTL 74	3.9	0.0021	body mass (VT:0001259)	body weight (CMO:0000012)	3	73592512	136118980	Rat
1582219	Bw63	Body weight QTL 63	3.8	0.001	body mass (VT:0001259)	body weight (CMO:0000012)	3	116582412	136118980	Rat
1582221	Kidm30	Kidney mass QTL 30	3.5	0.0008	kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	3	85062224	136118980	Rat
1582210	Bw71	Body weight QTL 71	3.3	0.0012	body mass (VT:0001259)	body weight (CMO:0000012)	3	85062224	136118980	Rat
7387306	Bw124	Body weight QTL 124	3.2	0.0003	body mass (VT:0001259)	body weight (CMO:0000012)	3	104545086	149545086	Rat
1300111	Rf12	Renal function QTL 12	3.78		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	3	81425008	141509147	Rat
724523	Tsu1	Thymus enlargement suppressive QTL 1	3.84		thymus mass (VT:0004954)	thymus weight to body weight ratio (CMO:0000612)	3	70845569	136091483	Rat
1600376	Arunc5	Aerobic running capacity QTL 5		0.21	exercise endurance trait (VT:0002332)	longest distance run on treadmill (CMO:0001406)	3	93829559	138829559	Rat
8694437	Bw167	Body weight QTL 167	22.46	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	3	112250810	157250810	Rat
2302273	Gluco35	Glucose level QTL 35	5.3	0.001	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	3	101255536	134750886	Rat
8662816	Vetf4	Vascular elastic tissue fragility QTL 4	4		renal artery integrity trait (VT:0010642)	number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)	3	79649560	177741895	Rat
2292613	Ept16	Estrogen-induced pituitary tumorigenesis QTL 16	8.3		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	3	67641995	130815812	Rat
1581503	Cm58	Cardiac mass QTL 58	2.7	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	3	96509147	141509147	Rat
1354611	Despr2	Despair related QTL 2	3.03	0.0028	locomotor behavior trait (VT:0001392)	amount of time spent in voluntary immobility (CMO:0001043)	3	117537367	162537367	Rat
2303620	Vencon4	Ventilatory control QTL 4	3.9		respiration trait (VT:0001943)	tidal volume (CMO:0000222)	3	125116475	170116475	Rat
631649	Bp123	Blood pressure QTL 123	3.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	110225882	155225882	Rat
12879848	Bw181	Body weght QTL 181		0.015	body mass (VT:0001259)	body weight (CMO:0000012)	3	90755164	141509147	Rat
5686842	Rf59	Renal function QTL 59			urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	3	122395989	167395989	Rat
1358885	Bp251	Blood pressure QTL 251	3.8		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	1	141509147	Rat
1581546	Pur13	Proteinuria QTL 13	2.93	0.0335	urine total protein amount (VT:0000032)	urine protein excretion rate (CMO:0000759)	3	98651826	167012663	Rat
631665	Bw8	Body weight QTL 8	5.5		body mass (VT:0001259)	body weight (CMO:0000012)	3	125814931	139636791	Rat
1331758	Bp207	Blood pressure QTL 207	2.848		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	110634702	155634702	Rat
1358888	Bp264	Blood pressure QTL 264	4.43		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	5675975	141509147	Rat
1358186	Ept2	Estrogen-induced pituitary tumorigenesis QTL 2	8.3		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	3	67641995	130815812	Rat
724532	Cm17	Cardiac mass QTL 17	2		heart mass (VT:0007028)	calculated heart weight (CMO:0000073)	3	116188400	161188400	Rat

Markers in Region

RH131149

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	3	109,826,239 - 109,826,430 (+)	MAPPER	mRatBN7.2
Rnor_6.0	3	114,879,930 - 114,880,120	NCBI	Rnor6.0
Rnor_5.0	3	121,418,038 - 121,418,228	UniSTS	Rnor5.0
RGSC_v3.4	3	109,716,683 - 109,716,873	UniSTS	RGSC3.4
Celera	3	108,704,235 - 108,704,425	UniSTS
RH 3.4 Map	3	966.1	UniSTS
Cytogenetic Map	3	q35	UniSTS

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	67	163	91	90	59	92	59	6	356	192	11	142	81	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001025714	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC097469	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473949	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000003	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000056083 ⟹ ENSRNOP00000052934

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	3	130,269,958 - 130,281,360 (+)	Ensembl
mRatBN7.2 Ensembl	3	109,816,366 - 109,828,308 (+)	Ensembl
Rnor_6.0 Ensembl	3	114,869,459 - 114,881,590 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000099716 ⟹ ENSRNOP00000101252

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	3	130,268,442 - 130,281,360 (+)	Ensembl

RefSeq Acc Id:

NM_001025714 ⟹ NP_001020885

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	3	130,269,979 - 130,280,109 (+)	NCBI
mRatBN7.2	3	109,816,397 - 109,826,528 (+)	NCBI
Rnor_6.0	3	114,869,478 - 114,880,218 (+)	NCBI
Rnor_5.0	3	121,407,586 - 121,418,326 (+)	NCBI
RGSC_v3.4	3	109,706,842 - 109,716,971 (+)	RGD
Celera	3	108,694,425 - 108,704,523 (+)	RGD

Sequence:

show sequence

CCGACTAGACGCTCGAACTTGTTAGGTTCCTACGTCTTGCCTTTGGCTTCTCCACACCACTCGC
CCAACGCAGCGCCCAGTGCAGGGACATGAATGTTCCTGTGCCACCGCCCCCGGACGGGGTCCTT
ACGGGGCCCTCCGACAGCCTGGAGGCCGGCGAGCCTACGCCGGGCTTAAGCGACAGGTCTCCAG
ATGAAGGACTGATAGAGGATTTGGCTTTGGAGGACAGAGCTGTAGAGCACCTGGTGGGAGGCCT
GCTGTCCCACTACCTACCAGATCTGCAGAGGTCCAAGCGAGCACTCCAGGAACTCACACAGAAC
CAAGTTGTGTTACTAGATACACTGGAACAAGAGATTTCAAAATTTAAAGAATGCCACTCCATGC
TGGACATCAATGCTTTGTTCACGGAAGCGAAGCACTATCACGCCAAGCTGGTGACCATAAGGAA
AGAGATGTTGCTGCTCCACGAGAAAACATCCAAGCTGAAAAAAAGAGCACTGAAGCTGCAGCAG
CAGAGGCAGAAAGAGGAGCTGGAGAGAGAGCAGCAGCGAGAGAGGGAGTTTGAAAGAGAGAAGC
AGCTGACAGCCAAGCCAGCCAAGAGGACGTGAGGAGCCTGCTTTCCAGTTCCTGTCCCATCCTG
CTTTCTGGATGTCCAGTGCTGCATACAGAGAGCGAGGCGTGGATGGTGCCTTACGCCCTGGCAT
GCCTTGAGTCTTTCCCAGGGTTGTATGTGTCCAAGACTTCACTCAAGAAGCCTTGTTGATACTT
ATGTTTTCAACTCTTGCTTAACTTTAAAATTTATTATTTTGATCTTAAATCACTTGTAAACTGA
AAACACTGGTTATTGTAAGAGTCTGGATACAGTTCAAAATGAGGCGAAGGTCTGACCGTCTTAA
GAGTCAGTTTTAGTTTCAGTTTCTCCTTTTCTGAGGACAGGCCTTCCCTGCACAGCCACACTGA
TTTCTGGCAACTCCTTTTTATTGTTTAAAGAGAAACTCCAATTGTTTGACCGTAATTCTCCCAG
AAAGAGAGCTGCCAAGCTTTTATGAAGAACTTGTGAAGTGTATGTCACTGGTGAGGCCAGCACC
TGAGACGTAGGCTGGGAGTAGATACAGACAGACTCTCCAGCCGTTCTCCTCTGTTTTCCAGTCT
TGCTGCTGATAGAGATTTTGGGTTTAGGGCAGGATTCTATTCATTCCTCAAGCTGTGCAGCAAT
GGTGGGCCTGCCAGATACTCAAAGGTGTGTCTGTGTCTGTCTGTGTGTCTGTGTCTGTCTGTGT
GTGTGTGTTTGCATGTGCATGCTAAGTCATCACTGTGTAACAATGTCTCTGTGTTTTTTCTTTT
CCTCTCTCCTTTTTTTTTCTCCTAGAGACAGGCTCTCTATAAAGCCCTGGCTGTCCTGGTACTC
ACTGTGGAGACCAGGCTGGCCTCAAACAATCCACTTGCCTCTTTCCCCAGTGCTGGGATTAAAG
GTGTGCACTGCCACACCTTGTTTGAAGTAGAACAGAGTCTGCTACTGCTCACAGCATATGTAAA
GAACACAGAAGAGGCCCGATTGATGCCTTTGCTGTTTTCTAGACCTTTCCCTCTCCTGTGTAGG
AACTTACTCTGTAGGCAAGATGAAGTCTCCTTGTTGGAAATCAAGAGTGCAGTAGTTTACTCCC
CATTTTAGTGTTTAATAGGAAGCTCGTTTCTAGCCCCTACTTTGAGTGAGCAGCACCAAGCTAC
AAAGGTGTCTGATTAGAATGAGCATCTTTTATAACCCATGGTACACTTTTAGTAGGCTGGAATT
ACTACCTCTGATCACATACTGGGCGATGTGGAGATCATTAAAGATGACCAGTGCTAAGAACTCG
TCAGCTTAAAGGCTGTTTCTTTGAAGGAGCCCTTTCCTTTTTAATGAATGAATTGTGATCTCAC
AGTCATTGACTTGACTTCTGTTCAAGAATACAAATGAGGTTATTTGAACGGCTGTTACCCTTTG
TCACTTACTGTCACTTCTAGAGCAAAAGTCATTAGGACTTGCAGGACAATGCCATTACATTACA
GAATGTACTTATTACAATAAAATATCTGATATCTGGCAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001020885	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH97469	(Get FASTA)	NCBI Sequence Viewer
	EDL80048	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000102139
GenBank Protein	Q4V8A6	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	NP_001020885 ⟸ NM_001025714
- UniProtKB:	Q4V8A6 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MNVPVPPPPDGVLTGPSDSLEAGEPTPGLSDRSPDEGLIEDLALEDRAVEHLVGGLLSHYLPDL QRSKRALQELTQNQVVLLDTLEQEISKFKECHSMLDINALFTEAKHYHAKLVTIRKEMLLLHEK TSKLKKRALKLQQQRQKEELEREQQREREFEREKQLTAKPAKRT hide sequence

Ensembl Acc Id:

ENSRNOP00000052934 ⟸ ENSRNOT00000056083

Ensembl Acc Id:

ENSRNOP00000101252 ⟸ ENSRNOT00000099716

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q4V8A6-F1-model_v2	AlphaFold	Q4V8A6	1-172	view protein structure

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Promoters

RGD ID:

13692373

Promoter ID:

EPDNEW_R2898

Type:

initiation region

Name:

Bloc1s6_1

Description:

biogenesis of lysosomal organelles complex 1 subunit 6

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	3	114,869,536 - 114,869,596	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1310208	AgrOrtholog
BioCyc Gene	G2FUF-48081	BioCyc
Ensembl Genes	ENSRNOG00000037160	Ensembl, ENTREZGENE
Ensembl Transcript	ENSRNOT00000056083	ENTREZGENE
IMAGE_CLONE	IMAGE:7457729	IMAGE-MGC_LOAD
InterPro	BLOC-1_pallidin	UniProtKB/Swiss-Prot
	Snapin/Pallidin/Snn1	UniProtKB/Swiss-Prot
KEGG Report	rno:317630	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:114534	IMAGE-MGC_LOAD
NCBI Gene	317630	ENTREZGENE
PANTHER	BIOGENESIS OF LYSOSOME-RELATED ORGANELLES COMPLEX 1 SUBUNIT 6	UniProtKB/Swiss-Prot
	BIOGENESIS OF LYSOSOME-RELATED ORGANELLES COMPLEX 1 SUBUNIT 6	UniProtKB/Swiss-Prot
Pfam	Snapin_Pallidin	UniProtKB/Swiss-Prot
PhenoGen	Bloc1s6	PhenoGen
PIRSF	BLOC-1_complex_pallidin	UniProtKB/Swiss-Prot
RatGTEx	ENSRNOG00000037160	RatGTEx
RNAcentral	URS00022B846F	RNACentral
UniProt	A0ABK0LDN4_RAT	UniProtKB/TrEMBL
	BL1S6_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-01-20	Bloc1s6	biogenesis of lysosomal organelles complex 1 subunit 6	Bloc1s6	biogenesis of lysosomal organelles complex-1, subunit 6, pallidin	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-10-10	Bloc1s6	biogenesis of lysosomal organelles complex-1, subunit 6, pallidin	Pldn	pallidin homolog (mouse)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-12-15	Pldn	pallidin homolog (mouse)	Pldn	pallidin	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-12-06	Pldn	pallidin	Pldn_predicted	pallidin (predicted)	Symbol and Name updated	1559027	APPROVED
2005-01-12	Pldn_predicted	pallidin (predicted)			Symbol and Name status set to approved	70820	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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Imported Disease Annotations - MGI

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