Variant report

Variant	rs4714141
Chromosome Location	chr6:38257158-38257159
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:38256129..38257885-chr6:38259661..38261531,2	MCF-7	breast:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10484930	0.90[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs10484931	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12173290	0.97[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12524225	0.84[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs12527432	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12529549	0.90[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12660323	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12664994	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16890552	0.88[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4711531	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4711532	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4714139	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57012325	0.88[ASN][1000 genomes]
rs57934228	0.87[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs59624393	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60500173	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73422824	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs73422833	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs73730927	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73730928	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs871182	0.87[AMR][1000 genomes]
rs871184	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9296243	0.88[ASN][1000 genomes]
rs9349065	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9366951	0.97[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9366952	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9369044	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9369045	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9369046	0.87[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9369047	0.87[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9380728	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9380729	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9380730	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9380731	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs9380732	0.94[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9380733	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9394483	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9394485	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9394487	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9394490	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9394491	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv885818	chr6:38147745-38436317	Enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv885820	chr6:38166511-38468887	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38224400-38267600	Weak transcription	Primary T cells from cord blood	blood
2	chr6:38226400-38258000	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr6:38230800-38257800	Weak transcription	Pancreas	Pancrea
4	chr6:38238400-38258200	Weak transcription	Left Ventricle	heart
5	chr6:38238600-38258000	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr6:38239400-38257800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr6:38239400-38259200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr6:38239800-38257600	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr6:38240000-38257800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr6:38241600-38258200	Weak transcription	Rectal Smooth Muscle	rectum
11	chr6:38243400-38257200	Weak transcription	Liver	Liver
12	chr6:38247200-38257800	Weak transcription	Fetal Kidney	kidney
13	chr6:38248400-38258400	Weak transcription	Colon Smooth Muscle	Colon
14	chr6:38248800-38257400	Weak transcription	Fetal Heart	heart
15	chr6:38249000-38257600	Weak transcription	Brain Anterior Caudate	brain
16	chr6:38249000-38258200	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr6:38249200-38257800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
18	chr6:38249200-38258000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr6:38249200-38258000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr6:38249200-38258400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr6:38249200-38275600	Weak transcription	Fetal Brain Male	brain
22	chr6:38250600-38257600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr6:38250600-38258200	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr6:38252200-38257600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr6:38252200-38257600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr6:38252400-38257800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr6:38253000-38257400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr6:38253200-38257200	Weak transcription	Adipose Nuclei	Adipose
29	chr6:38253200-38257600	Weak transcription	Fetal Intestine Large	intestine
30	chr6:38256000-38258400	Weak transcription	Primary B cells from peripheral blood	blood
31	chr6:38256000-38263000	Weak transcription	Lung	lung
32	chr6:38256200-38257800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr6:38256200-38257800	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr6:38256200-38258000	Weak transcription	Primary B cells from cord blood	blood
35	chr6:38256200-38258000	Weak transcription	Brain Angular Gyrus	brain
36	chr6:38256200-38258200	Weak transcription	Brain Substantia Nigra	brain
37	chr6:38256200-38258400	Weak transcription	Ovary	ovary
38	chr6:38256200-38258400	Weak transcription	Stomach Smooth Muscle	stomach
39	chr6:38256400-38258000	Weak transcription	Primary T helper cells fromperipheralblood	blood
40	chr6:38256400-38258000	Weak transcription	Brain Cingulate Gyrus	brain
41	chr6:38256400-38259000	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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