Variant report

Variant	rs10772506
Chromosome Location	chr12:11932058-11932059
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	chr12:11930876..11932594-chr12:11939826..11941565,2	MCF-7	breast:
2	chr12:11818730..11821682-chr12:11929813..11932777,2	MCF-7	breast:

Extended variants
information (count: 13 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10491990	1.00[CEU][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.96[TSI][hapmap];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11054456	0.86[CHB][hapmap];0.95[JPT][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1894331	0.83[CHB][hapmap]
rs1986946	0.82[CHB][hapmap];0.81[CHD][hapmap];0.82[GIH][hapmap]
rs3782139	0.86[CHB][hapmap];0.88[CHD][hapmap]
rs4763725	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4763726	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7311993	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7957338	0.87[CHB][hapmap];0.85[CHD][hapmap];0.85[JPT][hapmap];0.82[MEX][hapmap];0.82[ASN][1000 genomes]
rs7973524	0.87[CHB][hapmap];0.85[JPT][hapmap];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv870039	chr12:11800363-11996598	Enhancers Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
2	nsv1053609	chr12:11898099-11933906	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv832331	chr12:11925095-12114451	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10772506	ARHGDIB	cis	cerebellum	SCAN

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:11909600-11932400	Genic enhancers	Fetal Thymus	thymus
2	chr12:11915400-11938000	Weak transcription	NHEK	skin
3	chr12:11915600-11938000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr12:11918000-11936000	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr12:11919400-11935000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr12:11919600-11936200	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr12:11919600-11936800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr12:11919800-11932400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr12:11920000-11937800	Weak transcription	NHLF	lung
10	chr12:11921800-11946600	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr12:11922000-11948200	Weak transcription	Colonic Mucosa	Colon
12	chr12:11923600-11934600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr12:11923600-11952000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr12:11925800-11938000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr12:11925800-11938000	Weak transcription	HMEC	breast
16	chr12:11926600-11936200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr12:11927000-11936000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr12:11927400-11934400	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr12:11927400-11937400	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
20	chr12:11927400-11941400	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr12:11927800-11946200	Weak transcription	Gastric	stomach
22	chr12:11928000-11933400	Weak transcription	Placenta	Placenta
23	chr12:11928000-11946400	Weak transcription	Fetal Intestine Large	intestine
24	chr12:11928200-11932400	Weak transcription	Primary B cells from peripheral blood	blood
25	chr12:11928200-11936800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr12:11928200-11938200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr12:11929000-11938200	Weak transcription	Brain Cingulate Gyrus	brain
28	chr12:11929800-11934200	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr12:11929800-11935200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr12:11929800-11946200	Weak transcription	HUVEC	blood vessel
31	chr12:11929800-11948600	Weak transcription	Primary B cells from cord blood	blood
32	chr12:11930000-11934200	Enhancers	Stomach Smooth Muscle	stomach
33	chr12:11930000-11943200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr12:11930400-11932200	Enhancers	Left Ventricle	heart
35	chr12:11930400-11932200	Enhancers	Psoas Muscle	Psoas
36	chr12:11930400-11932400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr12:11930400-11934600	Enhancers	Rectal Smooth Muscle	rectum
38	chr12:11930600-11932400	Enhancers	Skeletal Muscle Female	skeletal muscle
39	chr12:11930600-11934000	Enhancers	Fetal Heart	heart
40	chr12:11930800-11932200	Enhancers	Primary T helper cells PMA-I stimulated	--
41	chr12:11930800-11932200	Enhancers	Right Ventricle	heart
42	chr12:11930800-11932600	Enhancers	Brain Anterior Caudate	brain
43	chr12:11930800-11932600	Enhancers	Skeletal Muscle Male	skeletal muscle
44	chr12:11930800-11932800	Enhancers	Adipose Nuclei	Adipose
45	chr12:11930800-11932800	Enhancers	Fetal Lung	lung
46	chr12:11930800-11933000	Enhancers	Osteobl	bone
47	chr12:11930800-11933600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
48	chr12:11930800-11934400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
49	chr12:11930800-11935000	Enhancers	Colon Smooth Muscle	Colon
50	chr12:11930800-11938600	Weak transcription	Cortex derived primary cultured neurospheres	brain

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