Variant report

Variant	rs12665885
Chromosome Location	chr7:140051848-140051849
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	chr7:140041965..140045335-chr7:140049300..140052331,3	MCF-7	breast:
2	chr7:140046838..140048938-chr7:140050078..140052698,2	K562	blood:

Variant related genes	Relation type
ENSG00000157800	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10258709	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12671831	0.86[AMR][1000 genomes]
rs12673021	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12703771	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12703772	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12703774	0.96[CEU][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12703775	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12703777	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12703778	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12703782	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12703783	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12703792	0.91[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12703794	0.83[ASN][1000 genomes]
rs12703795	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12703797	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13232870	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13233309	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13244256	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3924962	0.91[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4725685	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4726780	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62490396	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6953981	0.91[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6957189	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6967815	0.86[CEU][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7777207	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7778099	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7792038	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9691058	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9692001	0.81[AMR][1000 genomes];0.87[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	nsv1022919	chr7:140043299-140120546	Active TSS Genic enhancers Weak transcription Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:140026600-140060600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr7:140033600-140096000	Weak transcription	Stomach Mucosa	stomach
3	chr7:140034800-140085600	Weak transcription	Psoas Muscle	Psoas
4	chr7:140035000-140052400	Weak transcription	Fetal Kidney	kidney
5	chr7:140035000-140074200	Weak transcription	Right Atrium	heart
6	chr7:140035200-140058200	Weak transcription	Small Intestine	intestine
7	chr7:140035200-140060600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr7:140038000-140060200	Strong transcription	Primary T cells from cord blood	blood
9	chr7:140038000-140061000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr7:140038200-140061200	Strong transcription	Fetal Stomach	stomach
11	chr7:140038600-140055600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr7:140038600-140056800	Strong transcription	Primary T helper cells PMA-I stimulated	--
13	chr7:140038600-140060400	Strong transcription	HUES48 Cell Line	embryonic stem cell
14	chr7:140039000-140055800	Strong transcription	Liver	Liver
15	chr7:140039200-140060400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr7:140039400-140058600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr7:140039600-140054200	Strong transcription	Duodenum Mucosa	Duodenum
18	chr7:140039600-140057400	Strong transcription	Primary T cells fromperipheralblood	blood
19	chr7:140039800-140054800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr7:140039800-140055600	Strong transcription	Primary T helper cells fromperipheralblood	blood
21	chr7:140040000-140056800	Strong transcription	Fetal Intestine Large	intestine
22	chr7:140040600-140055000	Strong transcription	Primary B cells from cord blood	blood
23	chr7:140040800-140053200	Strong transcription	Spleen	Spleen
24	chr7:140041200-140052600	Strong transcription	Thymus	Thymus
25	chr7:140042000-140084800	Weak transcription	Hela-S3	cervix
26	chr7:140043000-140058200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr7:140043000-140060400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr7:140043200-140052600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr7:140043200-140058000	Strong transcription	Primary neutrophils fromperipheralblood	blood
30	chr7:140044600-140055600	Strong transcription	H1 Cell Line	embryonic stem cell
31	chr7:140044600-140056800	Strong transcription	Monocytes-CD14+_RO01746	blood
32	chr7:140044800-140057000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
33	chr7:140045800-140058200	Weak transcription	Esophagus	oesophagus
34	chr7:140046000-140076200	Weak transcription	Right Ventricle	heart
35	chr7:140046200-140052600	Strong transcription	Sigmoid Colon	Sigmoid Colon
36	chr7:140046400-140056400	Weak transcription	Colonic Mucosa	Colon
37	chr7:140046800-140052800	Strong transcription	Primary T helper naive cells from peripheral blood	blood
38	chr7:140046800-140055600	Strong transcription	Primary monocytes fromperipheralblood	blood
39	chr7:140046800-140055600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr7:140046800-140056800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
41	chr7:140047000-140057200	Strong transcription	K562	blood
42	chr7:140047200-140054600	Strong transcription	Placenta	Placenta
43	chr7:140047200-140054800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr7:140047600-140052400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr7:140047600-140084200	Weak transcription	Fetal Brain Male	brain
46	chr7:140047800-140064400	Weak transcription	HMEC	breast
47	chr7:140048000-140058400	Strong transcription	Duodenum Smooth Muscle	Duodenum
48	chr7:140048200-140052000	Strong transcription	Fetal Intestine Small	intestine
49	chr7:140048200-140058000	Weak transcription	A549	lung
50	chr7:140048400-140052600	Strong transcription	Aorta	Aorta

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