Variant report

Variant	rs12250485
Chromosome Location	chr10:4245009-4245010
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	chr10:4243895..4246337-chr10:4299306..4301962,2	MCF-7	breast:
2	chr10:3827804..3829359-chr10:4243030..4245724,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KLF6-7	chr10:4242829-4249358	XLOC_008700
2	lnc-KLF6-7	chr10:4243333-4249358	ENSG00000233117.2

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11252407	1.00[EUR][1000 genomes]
rs11252427	1.00[EUR][1000 genomes]
rs11252428	1.00[EUR][1000 genomes]
rs11815588	1.00[EUR][1000 genomes]
rs11819395	1.00[EUR][1000 genomes]
rs12246351	1.00[EUR][1000 genomes]
rs12266164	1.00[EUR][1000 genomes]
rs1923398	1.00[EUR][1000 genomes]
rs4142671	1.00[EUR][1000 genomes]
rs55880712	1.00[EUR][1000 genomes]
rs60543757	1.00[EUR][1000 genomes]
rs7087506	1.00[EUR][1000 genomes]
rs7097687	1.00[EUR][1000 genomes]
rs7098580	1.00[EUR][1000 genomes]
rs73590778	1.00[EUR][1000 genomes]
rs73590779	1.00[EUR][1000 genomes]
rs73590787	1.00[EUR][1000 genomes]
rs73590789	1.00[EUR][1000 genomes]
rs73592723	1.00[EUR][1000 genomes]
rs74114737	1.00[EUR][1000 genomes]
rs7903376	1.00[EUR][1000 genomes]
rs7913017	1.00[EUR][1000 genomes]
rs7919733	1.00[EUR][1000 genomes]
rs7920841	1.00[EUR][1000 genomes]
rs7924147	1.00[EUR][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	nsv1051297	chr10:3908706-4277678	Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4237400-4254600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr10:4238600-4248600	Weak transcription	Right Ventricle	heart
3	chr10:4239600-4245200	Weak transcription	Aorta	Aorta
4	chr10:4240000-4246800	Weak transcription	Stomach Mucosa	stomach
5	chr10:4240600-4246600	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr10:4240600-4257000	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr10:4242000-4247000	Weak transcription	HMEC	breast
8	chr10:4242200-4247200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr10:4242400-4246400	Weak transcription	Pancreas	Pancrea
10	chr10:4242400-4246800	Weak transcription	NHEK	skin
11	chr10:4242400-4247000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr10:4243200-4246400	Enhancers	Fetal Muscle Trunk	muscle
13	chr10:4243600-4245200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr10:4243600-4246000	Enhancers	Placenta Amnion	Placenta Amnion
15	chr10:4243600-4246200	Enhancers	Fetal Muscle Leg	muscle
16	chr10:4243800-4245200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr10:4243800-4245400	Enhancers	Fetal Thymus	thymus
18	chr10:4243800-4246000	Enhancers	NHDF-Ad	bronchial
19	chr10:4244000-4247600	Enhancers	Breast Myoepithelial Primary Cells	Breast
20	chr10:4244200-4245400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr10:4244200-4245400	Enhancers	Fetal Lung	lung
22	chr10:4244200-4245400	Enhancers	Skeletal Muscle Male	skeletal muscle
23	chr10:4244200-4246000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr10:4244400-4245200	Weak transcription	Adipose Nuclei	Adipose
25	chr10:4244400-4245400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr10:4244600-4246000	Enhancers	Cortex derived primary cultured neurospheres	brain
27	chr10:4244600-4246000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr10:4244600-4246000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr10:4244600-4246000	Enhancers	Placenta	Placenta
30	chr10:4244800-4245200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr10:4244800-4245200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr10:4244800-4245200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr10:4244800-4245400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr10:4244800-4247200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr10:4245000-4245200	Enhancers	Left Ventricle	heart
36	chr10:4245000-4245400	Active TSS	Stomach Smooth Muscle	stomach
37	chr10:4245000-4245800	Enhancers	Fetal Heart	heart
38	chr10:4245000-4246000	Enhancers	Fetal Stomach	stomach
39	chr10:4245000-4246200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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