Variant report

Variant	rs12770669
Chromosome Location	chr10:50243960-50243961
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:50243019..50245477-chr10:50248832..50250712,2	MCF-7	breast:
2	chr10:50242711..50245111-chr10:50261545..50265168,4	MCF-7	breast:
3	chr10:50219935..50221949-chr10:50243957..50245901,2	K562	blood:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs1125517	1.00[CHB][hapmap];0.94[CHD][hapmap];0.88[JPT][hapmap];0.86[TSI][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12764062	1.00[CHB][hapmap];0.88[JPT][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12764806	0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12765128	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12765141	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12767010	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12768497	1.00[CHB][hapmap];0.97[CHD][hapmap];0.88[JPT][hapmap];0.86[TSI][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12769016	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12770345	0.86[CHB][hapmap];0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12770882	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12774742	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12775075	0.87[ASN][1000 genomes]
rs12776211	0.82[ASW][hapmap];0.85[CHB][hapmap];0.87[CHD][hapmap];0.83[MKK][hapmap];0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12779947	0.93[ASN][1000 genomes]
rs12782892	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17773323	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1877806	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2102686	1.00[CHB][hapmap];0.97[CHD][hapmap];0.88[JPT][hapmap];0.86[TSI][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2175916	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2175917	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3763776	1.00[ASW][hapmap];0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3810954	1.00[CHB][hapmap];0.97[CHD][hapmap];0.88[JPT][hapmap];0.82[TSI][hapmap];0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3938117	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4293050	0.83[MKK][hapmap]
rs7082096	0.85[CHB][hapmap];0.87[CHD][hapmap];0.82[ASN][1000 genomes]
rs7082251	0.93[ASN][1000 genomes]
rs7083453	0.93[ASN][1000 genomes]
rs7912598	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv831866	chr10:50165180-50335276	Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases
2	esv3341340	chr10:50239946-50244344	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:50222800-50279000	Weak transcription	Brain Cingulate Gyrus	brain
2	chr10:50223000-50254200	Weak transcription	NHDF-Ad	bronchial
3	chr10:50224400-50258200	Weak transcription	Brain Anterior Caudate	brain
4	chr10:50224600-50244800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr10:50232400-50279200	Weak transcription	Brain Hippocampus Middle	brain
6	chr10:50232600-50245000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr10:50232800-50247800	Weak transcription	Right Atrium	heart
8	chr10:50232800-50255400	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr10:50233000-50266000	Weak transcription	Colon Smooth Muscle	Colon
10	chr10:50233800-50247000	Weak transcription	Right Ventricle	heart
11	chr10:50233800-50261400	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr10:50233800-50261400	Weak transcription	Spleen	Spleen
13	chr10:50234000-50249000	Strong transcription	Fetal Muscle Leg	muscle
14	chr10:50234000-50254200	Weak transcription	Left Ventricle	heart
15	chr10:50234200-50246800	Weak transcription	Fetal Intestine Small	intestine
16	chr10:50237400-50244200	Strong transcription	Stomach Smooth Muscle	stomach
17	chr10:50237600-50248800	Weak transcription	Liver	Liver
18	chr10:50240600-50244000	Weak transcription	Adipose Nuclei	Adipose
19	chr10:50240600-50244800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr10:50240600-50246600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr10:50240600-50247200	Weak transcription	HSMMtube	muscle
22	chr10:50240600-50247400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr10:50240800-50246600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr10:50241600-50263200	Weak transcription	NHLF	lung
25	chr10:50242400-50244600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr10:50242400-50246200	Weak transcription	Fetal Lung	lung
27	chr10:50242400-50258000	Weak transcription	Fetal Kidney	kidney
28	chr10:50242400-50259200	Weak transcription	Brain Substantia Nigra	brain
29	chr10:50243000-50245400	Strong transcription	Fetal Muscle Trunk	muscle
30	chr10:50243000-50245400	Enhancers	Fetal Thymus	thymus
31	chr10:50243000-50245600	Strong transcription	Fetal Stomach	stomach
32	chr10:50243200-50247200	Weak transcription	Esophagus	oesophagus
33	chr10:50243400-50246600	Weak transcription	Aorta	Aorta
34	chr10:50243400-50246800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
35	chr10:50243400-50261200	Weak transcription	Lung	lung
36	chr10:50243600-50244400	Strong transcription	Ovary	ovary
37	chr10:50243800-50278800	Weak transcription	Duodenum Smooth Muscle	Duodenum

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