Variant report

Variant	rs12210416
Chromosome Location	chr6:25386772-25386773
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:25367288..25370021-chr6:25385958..25387793,2	K562	blood:

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

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1013045	0.89[ASN][1000 genomes]
rs1028347	0.81[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs1209305	0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs12173289	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13211247	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13217807	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1556043	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs169978	0.81[CEU][hapmap];0.87[CHB][hapmap];0.92[JPT][hapmap];0.89[ASN][1000 genomes]
rs177333	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs215009	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs215013	0.88[CHB][hapmap];0.93[JPT][hapmap];0.88[ASN][1000 genomes]
rs215014	0.87[ASN][1000 genomes]
rs2690059	0.86[CHB][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs2744234	0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs2744237	0.86[CHB][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs35361710	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4712921	0.82[ASN][1000 genomes]
rs4712922	0.80[ASN][1000 genomes]
rs6456678	0.86[CHB][hapmap];0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs6913927	0.88[CHB][hapmap];0.93[JPT][hapmap]
rs6933921	0.86[CHB][hapmap];0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs760864	0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs7760906	0.84[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv883485	chr6:25259137-25437986	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv883486	chr6:25260434-25422369	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv883487	chr6:25280119-25508868	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv830612	chr6:25342408-25509758	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv601168	chr6:25346334-25393306	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25370800-25388800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:25377400-25410600	Weak transcription	Gastric	stomach
3	chr6:25377800-25395600	Weak transcription	Pancreas	Pancrea
4	chr6:25378400-25389000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:25378800-25389000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr6:25378800-25389200	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr6:25379200-25387000	Weak transcription	Thymus	Thymus
8	chr6:25379800-25387800	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr6:25380200-25389000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr6:25380400-25387400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr6:25382000-25389200	Weak transcription	Aorta	Aorta
12	chr6:25383000-25403600	Weak transcription	Right Atrium	heart
13	chr6:25383600-25405000	Weak transcription	Fetal Intestine Small	intestine
14	chr6:25384200-25391600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr6:25384600-25387600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr6:25384800-25390600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr6:25385000-25387400	Weak transcription	GM12878-XiMat	blood
18	chr6:25385600-25389200	Weak transcription	Left Ventricle	heart
19	chr6:25385600-25390400	Enhancers	Cortex derived primary cultured neurospheres	brain
20	chr6:25386400-25390800	Enhancers	Fetal Thymus	thymus
21	chr6:25386600-25386800	Weak transcription	HUES48 Cell Line	embryonic stem cell

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