Variant report

Variant	rs1772254
Chromosome Location	chr6:24448734-24448735
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:24447065..24450391-chr6:24494132..24495678,3	K562	blood:
2	chr6:24431522..24434175-chr6:24447084..24450027,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112293	Chromatin interaction
ENSG00000112294	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10498720	1.00[CEU][hapmap]
rs12660319	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs12661981	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12665371	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs16889286	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1742283	0.86[ASN][1000 genomes]
rs2295651	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs2744566	0.95[ASN][1000 genomes]
rs2753928	0.90[ASN][1000 genomes]
rs2793429	0.95[ASN][1000 genomes]
rs2793435	0.95[ASN][1000 genomes]
rs2793438	0.98[ASN][1000 genomes]
rs3761790	1.00[CEU][hapmap]
rs41271783	0.82[EUR][1000 genomes]
rs4298343	1.00[CEU][hapmap]
rs4712824	0.97[ASN][1000 genomes]
rs61733147	0.82[EUR][1000 genomes]
rs793713	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs793714	1.00[ASN][1000 genomes]
rs793715	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026638	chr6:24347972-24475300	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	9 gene(s)	inside rSNPs	diseases
2	esv2763542	chr6:24445131-24520637	Strong transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	7 gene(s)	inside rSNPs	diseases
3	esv2229610	chr6:24448369-24448785	Weak transcription Enhancers Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24417400-24451800	Strong transcription	Liver	Liver
2	chr6:24421200-24448800	Weak transcription	Gastric	stomach
3	chr6:24421200-24459600	Weak transcription	Spleen	Spleen
4	chr6:24424000-24456600	Weak transcription	Ovary	ovary
5	chr6:24427600-24456800	Weak transcription	Lung	lung
6	chr6:24427800-24467000	Weak transcription	Brain Germinal Matrix	brain
7	chr6:24428200-24449400	Weak transcription	Fetal Muscle Trunk	muscle
8	chr6:24429000-24494200	Weak transcription	Primary B cells from cord blood	blood
9	chr6:24429200-24455600	Weak transcription	Brain Angular Gyrus	brain
10	chr6:24429400-24483800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr6:24429600-24455000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr6:24432600-24463800	Weak transcription	Fetal Intestine Small	intestine
13	chr6:24433600-24451600	Weak transcription	Adipose Nuclei	Adipose
14	chr6:24437600-24455400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr6:24437800-24450600	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr6:24437800-24459600	Weak transcription	Left Ventricle	heart
17	chr6:24438000-24464000	Weak transcription	Pancreas	Pancrea
18	chr6:24438200-24455600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr6:24438400-24483200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr6:24438600-24459800	Weak transcription	Fetal Stomach	stomach
21	chr6:24438800-24469200	Weak transcription	Brain Cingulate Gyrus	brain
22	chr6:24440400-24452000	Weak transcription	Primary T cells from cord blood	blood
23	chr6:24441400-24452000	Weak transcription	Thymus	Thymus
24	chr6:24442000-24452000	Weak transcription	Fetal Thymus	thymus
25	chr6:24444000-24449200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr6:24444000-24458200	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr6:24445600-24448800	Strong transcription	Fetal Muscle Leg	muscle
28	chr6:24446000-24449200	Enhancers	Primary neutrophils fromperipheralblood	blood
29	chr6:24446400-24449400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr6:24446400-24451600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr6:24446400-24451800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr6:24446800-24448800	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr6:24447200-24470200	Weak transcription	Aorta	Aorta
34	chr6:24447400-24490400	Weak transcription	Brain Anterior Caudate	brain
35	chr6:24448200-24466200	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr6:24448400-24452000	Weak transcription	K562	blood
37	chr6:24448400-24458000	Weak transcription	Stomach Smooth Muscle	stomach

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