Variant report

Variant	rs872234
Chromosome Location	chr6:38289804-38289805
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	chr6:38275306..38278894-chr6:38287022..38290918,3	MCF-7	breast:
2	chr6:38280546..38282066-chr6:38289673..38292016,2	K562	blood:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10484928	0.85[JPT][hapmap];0.84[MEX][hapmap]
rs16890522	0.80[CHD][hapmap]
rs16890577	0.86[CHD][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes]
rs16890615	0.85[JPT][hapmap]
rs16890616	0.85[JPT][hapmap]
rs16890672	0.85[JPT][hapmap]
rs1931759	0.86[CHD][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes]
rs4711534	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4711535	1.00[JPT][hapmap];0.90[AMR][1000 genomes]
rs4711536	1.00[JPT][hapmap];0.90[AMR][1000 genomes]
rs4711537	1.00[JPT][hapmap]
rs4714146	0.88[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs6901321	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs764348	0.84[CHD][hapmap];0.86[JPT][hapmap];0.90[AMR][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	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
2	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
3	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
4	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
5	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:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38275400-38301200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
2	chr6:38278000-38310600	Weak transcription	Gastric	stomach
3	chr6:38278200-38295000	Weak transcription	Lung	lung
4	chr6:38278400-38305400	Weak transcription	Pancreas	Pancrea
5	chr6:38282600-38301400	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr6:38283000-38304000	Weak transcription	Primary T helper cells fromperipheralblood	blood
7	chr6:38284200-38296000	Weak transcription	Primary T cells fromperipheralblood	blood
8	chr6:38284800-38301200	Weak transcription	Fetal Intestine Small	intestine
9	chr6:38285000-38327800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr6:38286800-38290000	Enhancers	Fetal Muscle Leg	muscle
11	chr6:38286800-38291000	Weak transcription	Psoas Muscle	Psoas
12	chr6:38286800-38295400	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr6:38287400-38301200	Weak transcription	Primary B cells from cord blood	blood
14	chr6:38287600-38290000	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr6:38287600-38301200	Weak transcription	Primary T cells from cord blood	blood
16	chr6:38287800-38290000	Enhancers	Brain Hippocampus Middle	brain
17	chr6:38288000-38290000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr6:38288000-38290800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr6:38288000-38290800	Weak transcription	HSMMtube	muscle
20	chr6:38288000-38291000	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr6:38288000-38291000	Weak transcription	Brain Cingulate Gyrus	brain
22	chr6:38288000-38291600	Weak transcription	Fetal Muscle Trunk	muscle
23	chr6:38288000-38292800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr6:38288000-38305600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr6:38288400-38290200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr6:38288600-38290000	Enhancers	Fetal Brain Female	brain
27	chr6:38288800-38291600	Enhancers	Fetal Lung	lung
28	chr6:38289200-38290200	Weak transcription	Fetal Kidney	kidney
29	chr6:38289200-38295600	Weak transcription	Fetal Stomach	stomach
30	chr6:38289200-38301000	Weak transcription	Primary B cells from peripheral blood	blood
31	chr6:38289400-38290800	Weak transcription	Fetal Brain Male	brain
32	chr6:38289400-38291200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr6:38289400-38291800	Weak transcription	Brain Germinal Matrix	brain
34	chr6:38289600-38290600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr6:38289800-38290000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr6:38289800-38290000	Enhancers	Brain Anterior Caudate	brain
37	chr6:38289800-38290000	Flanking Active TSS	GM12878-XiMat	blood
38	chr6:38289800-38290200	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet

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