Variant report

Variant	rs11961001
Chromosome Location	chr6:132383261-132383262
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	6:132269655-132282174..6:132373869-132383497	GM12878	blood:
2	6:132176847-132180372..6:132373869-132383497	K562	blood:
3	6:132182612-132191683..6:132373869-132383497	Hela-S3	cervix:

Variant related genes	Relation type
ENSG00000118523	Chromatin interaction
ENSG00000197594	Chromatin interaction
ENSG00000227220	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs11962845	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11965300	0.84[ASN][1000 genomes]
rs11967791	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12332897	0.86[JPT][hapmap]
rs12662375	0.86[JPT][hapmap]
rs12665838	0.84[ASN][1000 genomes]
rs13203667	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13209044	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13209246	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13214059	0.84[ASN][1000 genomes]
rs13214079	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13217734	0.84[ASN][1000 genomes]
rs17060999	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs17061002	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs17061005	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs17277038	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1980442	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34520677	0.84[ASN][1000 genomes]
rs34703643	0.84[ASN][1000 genomes]
rs34837500	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34942968	0.91[ASN][1000 genomes]
rs35023618	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35322316	0.84[ASN][1000 genomes]
rs35599250	0.97[ASN][1000 genomes]
rs35881065	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs41529847	0.89[CEU][hapmap]
rs4425614	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4897557	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs55722159	0.84[ASN][1000 genomes]
rs56079441	0.84[ASN][1000 genomes]
rs56202806	0.84[ASN][1000 genomes]
rs56231728	0.84[ASN][1000 genomes]
rs56317827	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs67724714	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs68052689	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6914252	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs6922298	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs71574604	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7740997	0.84[ASN][1000 genomes]
rs7748412	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs7749832	0.84[ASN][1000 genomes]
rs7758139	1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap]
rs7762460	0.84[ASN][1000 genomes]
rs7770114	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs7770134	1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs7770728	0.82[ASN][1000 genomes]
rs7772154	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7775855	0.84[ASN][1000 genomes]
rs9321320	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9483384	0.86[JPT][hapmap]
rs9493173	0.97[ASN][1000 genomes]
rs9493175	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9493179	0.86[JPT][hapmap]
rs9493181	0.86[JPT][hapmap]
rs969522	1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv427768	chr6:132300468-132398477	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11961001	LOC285735	cis	parietal	SCAN
rs11961001	TAAR6	cis	parietal	SCAN
rs11961001	TAAR2	cis	cerebellum	SCAN

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:132375000-132384800	Weak transcription	Pancreas	Pancrea
2	chr6:132376600-132384400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:132379200-132385600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr6:132379200-132386200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr6:132379400-132383400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr6:132379400-132385600	Enhancers	NHDF-Ad	bronchial
7	chr6:132379600-132386200	Enhancers	Muscle Satellite Cultured Cells	--
8	chr6:132379800-132383600	Enhancers	Brain Germinal Matrix	brain
9	chr6:132379800-132384400	Weak transcription	Fetal Heart	heart
10	chr6:132380200-132383800	Enhancers	HUVEC	blood vessel
11	chr6:132380800-132384400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr6:132381000-132384000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr6:132381400-132384200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr6:132381400-132386800	Enhancers	NH-A	brain
15	chr6:132381800-132387000	Enhancers	HSMM	muscle
16	chr6:132382000-132383400	Enhancers	Brain Hippocampus Middle	brain
17	chr6:132382000-132384200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr6:132382200-132383800	Weak transcription	A549	lung
19	chr6:132382200-132384400	Weak transcription	Rectal Smooth Muscle	rectum
20	chr6:132382400-132384400	Weak transcription	HepG2	liver
21	chr6:132382400-132384800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr6:132382400-132385200	Enhancers	NHLF	lung
23	chr6:132382600-132383800	Weak transcription	Osteobl	bone
24	chr6:132382600-132384000	Weak transcription	HMEC	breast
25	chr6:132382600-132385200	Enhancers	Ovary	ovary
26	chr6:132383200-132383400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr6:132383200-132383400	Enhancers	Brain Substantia Nigra	brain
28	chr6:132383200-132384000	Weak transcription	Brain Anterior Caudate	brain
29	chr6:132383200-132384200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr6:132383200-132384200	Weak transcription	HSMMtube	muscle
31	chr6:132383200-132384400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr6:132383200-132384400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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