Variant report

Variant	rs12241797
Chromosome Location	chr10:93319574-93319575
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	chr10:93317213..93320903-chr10:93391428..93394572,3	MCF-7	breast:
2	chr10:93309981..93319603-chr10:93387875..93394075,18	MCF-7	breast:

Variant related genes	Relation type
ENSG00000119938	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10881918	0.81[ASN][1000 genomes]
rs10881919	0.81[ASN][1000 genomes]
rs10881923	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11186610	0.81[ASN][1000 genomes]
rs11186613	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12246543	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs12253464	0.85[CEU][hapmap]
rs12255223	0.81[ASN][1000 genomes]
rs12256369	0.81[ASN][1000 genomes]
rs12256726	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12260905	0.88[CEU][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12263117	0.90[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12268133	0.89[CEU][hapmap];1.00[CHB][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1411120	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1411121	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17106760	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2094710	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4933659	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs4933660	0.81[ASN][1000 genomes]
rs4933661	0.81[ASN][1000 genomes]
rs4933662	0.81[ASN][1000 genomes]
rs4933663	0.81[ASN][1000 genomes]
rs4933665	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4933666	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4933667	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4933668	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4933669	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56198147	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59997744	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7068979	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs7074115	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs716361	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72819249	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72819252	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7477129	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7895083	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7908831	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7910891	1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs7911125	0.91[ASN][1000 genomes]
rs928118	0.96[EUR][1000 genomes];1.00[ASN][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	esv19622	chr10:93305214-93361590	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93311600-93321000	Enhancers	Fetal Intestine Small	intestine
2	chr10:93312000-93320800	Enhancers	Fetal Intestine Large	intestine
3	chr10:93312000-93321000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr10:93312600-93320000	Enhancers	Liver	Liver
5	chr10:93314800-93321600	Enhancers	Stomach Mucosa	stomach
6	chr10:93315200-93321000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr10:93315200-93321200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr10:93315200-93321200	Weak transcription	Fetal Muscle Trunk	muscle
9	chr10:93315200-93322600	Weak transcription	Aorta	Aorta
10	chr10:93315200-93325600	Weak transcription	Gastric	stomach
11	chr10:93315200-93335600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr10:93315400-93323000	Weak transcription	Pancreas	Pancrea
13	chr10:93316000-93320600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr10:93316400-93321000	Weak transcription	Esophagus	oesophagus
15	chr10:93316600-93320800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr10:93316600-93323200	Weak transcription	Colon Smooth Muscle	Colon
17	chr10:93317200-93322600	Weak transcription	Right Atrium	heart
18	chr10:93317200-93323000	Weak transcription	Left Ventricle	heart
19	chr10:93317200-93324000	Weak transcription	Fetal Muscle Leg	muscle
20	chr10:93317400-93320600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr10:93317400-93320600	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr10:93317600-93320400	Enhancers	HepG2	liver
23	chr10:93317600-93320800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr10:93318000-93320800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr10:93318000-93323000	Weak transcription	Stomach Smooth Muscle	stomach
26	chr10:93318200-93320800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr10:93318200-93321000	Weak transcription	HSMMtube	muscle
28	chr10:93318400-93322600	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr10:93318600-93322400	Weak transcription	Fetal Heart	heart
30	chr10:93319000-93321200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr10:93319200-93320000	Strong transcription	Fetal Lung	lung
32	chr10:93319200-93322600	Weak transcription	Psoas Muscle	Psoas
33	chr10:93319400-93320800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr10:93319400-93321400	Enhancers	Duodenum Mucosa	Duodenum

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