Variant report

Variant	rs7138799
Chromosome Location	chr12:22215658-22215659
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	chr12:22214575..22216946-chr12:22221918..22224403,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000111728	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10841930	1.00[CEU][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10841937	0.94[ASN][1000 genomes]
rs11046274	0.83[CEU][hapmap];0.81[JPT][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2277390	0.94[ASN][1000 genomes]
rs2418039	0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs4390389	0.94[ASN][1000 genomes]
rs4762869	0.83[CEU][hapmap];0.82[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4762871	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7138727	0.91[CEU][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs728034	0.89[YRI][hapmap];0.82[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs7299662	0.94[ASN][1000 genomes]
rs731356	0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs7979140	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[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	nsv1051073	chr12:21910875-22271209	Flanking Bivalent TSS/Enh Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	esv2758298	chr12:22140834-22339299	Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	esv2759883	chr12:22140834-22736907	Flanking Bivalent TSS/Enh Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv438196	chr12:22195202-22234058	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	esv1850259	chr12:22198865-22244741	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:22200000-22218200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr12:22200000-22220200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr12:22200000-22220200	Weak transcription	Lung	lung
4	chr12:22200200-22215800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr12:22200200-22219600	Weak transcription	Aorta	Aorta
6	chr12:22200400-22216600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr12:22200400-22220400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr12:22200800-22220800	Weak transcription	Fetal Heart	heart
9	chr12:22201400-22220400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr12:22201800-22219000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr12:22202000-22218000	Weak transcription	Psoas Muscle	Psoas
12	chr12:22202000-22219600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr12:22202000-22220200	Weak transcription	Fetal Brain Male	brain
14	chr12:22202200-22217000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr12:22202200-22218000	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr12:22202200-22223800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr12:22203800-22220200	Weak transcription	Esophagus	oesophagus
18	chr12:22203800-22220200	Weak transcription	Small Intestine	intestine
19	chr12:22203800-22235200	Weak transcription	Gastric	stomach
20	chr12:22204600-22219400	Weak transcription	Stomach Mucosa	stomach
21	chr12:22204600-22223400	Weak transcription	Pancreas	Pancrea
22	chr12:22205200-22222200	Weak transcription	Fetal Intestine Small	intestine
23	chr12:22207000-22218400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr12:22207000-22220200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr12:22207600-22218800	Strong transcription	Primary T helper cells fromperipheralblood	blood
26	chr12:22207600-22219400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr12:22207800-22219000	Strong transcription	HUES48 Cell Line	embryonic stem cell
28	chr12:22208000-22219600	Strong transcription	Duodenum Mucosa	Duodenum
29	chr12:22208000-22219800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr12:22208000-22219800	Strong transcription	HUES64 Cell Line	embryonic stem cell
31	chr12:22208200-22216800	Strong transcription	Primary B cells from peripheral blood	blood
32	chr12:22208200-22217000	Strong transcription	HUES6 Cell Line	embryonic stem cell
33	chr12:22208400-22216200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr12:22208400-22216200	Strong transcription	Fetal Thymus	thymus
35	chr12:22208400-22219600	Strong transcription	Rectal Mucosa Donor 31	rectum
36	chr12:22208400-22219800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr12:22208400-22220800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
38	chr12:22208600-22216200	Strong transcription	K562	blood
39	chr12:22208600-22219800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr12:22208800-22220400	Strong transcription	Rectal Mucosa Donor 29	rectum
41	chr12:22209000-22217000	Strong transcription	HUVEC	blood vessel
42	chr12:22209800-22222000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr12:22209800-22223200	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr12:22209800-22229200	Weak transcription	Thymus	Thymus
45	chr12:22210000-22219400	Weak transcription	Skeletal Muscle Male	skeletal muscle
46	chr12:22210000-22219800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
47	chr12:22210000-22221200	Strong transcription	Liver	Liver
48	chr12:22210200-22218600	Weak transcription	Left Ventricle	heart
49	chr12:22210200-22219200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
50	chr12:22210200-22220200	Weak transcription	Spleen	Spleen

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