Variant report

Variant	rs852961
Chromosome Location	chr6:72186990-72186991
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:72186892..72189303-chr6:72189669..72192556,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-B3GAT2-6	chr6:72186490-72187193	NONHSAT113515
2	lnc-B3GAT2-6	chr6:72186490-72187169	ucscGeneNc_uc003pfz_1

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10155718	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1738072	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs492196	0.82[EUR][1000 genomes]
rs503993	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs504983	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs524110	0.82[EUR][1000 genomes]
rs547558	0.82[EUR][1000 genomes]
rs548456	0.82[EUR][1000 genomes]
rs555643	0.82[EUR][1000 genomes]
rs573317	0.82[ASN][1000 genomes]
rs580319	0.82[EUR][1000 genomes]
rs852919	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs852920	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs852922	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs852923	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs852924	0.97[ASN][1000 genomes]
rs852925	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs852926	0.97[ASN][1000 genomes]
rs852927	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs852929	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs852930	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs852931	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs852962	0.90[CHB][hapmap];0.93[JPT][hapmap];0.95[ASN][1000 genomes]
rs852963	0.82[JPT][hapmap]
rs852966	0.88[JPT][hapmap]
rs852971	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830684	chr6:72094842-72282684	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	488 gene(s)	inside rSNPs	diseases
2	nsv1025409	chr6:72175998-72205044	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:72178600-72187800	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr6:72179400-72191200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr6:72183000-72192600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr6:72184000-72187000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr6:72184200-72187600	Weak transcription	HSMMtube	muscle
6	chr6:72184200-72188400	Enhancers	Muscle Satellite Cultured Cells	--
7	chr6:72184400-72187600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr6:72185400-72188400	Enhancers	NHDF-Ad	bronchial
9	chr6:72185400-72192600	Enhancers	HSMM	muscle
10	chr6:72185600-72188400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr6:72185600-72188400	Enhancers	Osteobl	bone
12	chr6:72185800-72188400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr6:72185800-72189800	Enhancers	HMEC	breast
14	chr6:72186000-72187000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr6:72186000-72187000	Weak transcription	Adipose Nuclei	Adipose
16	chr6:72186000-72187800	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr6:72186000-72187800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr6:72186000-72189600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr6:72186000-72189800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr6:72186200-72187800	Weak transcription	Brain Hippocampus Middle	brain
21	chr6:72186200-72188000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr6:72186200-72188000	Weak transcription	Fetal Lung	lung
23	chr6:72186200-72188400	Weak transcription	Fetal Kidney	kidney
24	chr6:72186400-72189600	Enhancers	Breast Myoepithelial Primary Cells	Breast
25	chr6:72186600-72187000	Enhancers	H9 Cell Line	embryonic stem cell
26	chr6:72186600-72188400	Enhancers	NH-A	brain
27	chr6:72186600-72189400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr6:72186800-72187000	Enhancers	iPS-15b Cell Line	embryonic stem cell
29	chr6:72186800-72187000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr6:72186800-72187000	Enhancers	Hela-S3	cervix
31	chr6:72186800-72187000	Enhancers	NHLF	lung
32	chr6:72186800-72187200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr6:72186800-72187200	Flanking Active TSS	NHEK	skin
34	chr6:72186800-72187400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr6:72186800-72188000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr6:72186800-72188000	Enhancers	HUVEC	blood vessel
37	chr6:72186800-72188800	Enhancers	ES-I3 Cell Line	embryonic stem cell
38	chr6:72186800-72189200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr6:72186800-72189800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr6:72186800-72193200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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