Variant report

Variant	rs16907264
Chromosome Location	chr12:11931863-11931864
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	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: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11833885	1.00[GIH][hapmap];0.83[MKK][hapmap];0.88[YRI][hapmap];0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12304250	1.00[AMR][1000 genomes]
rs16907267	1.00[GIH][hapmap];0.80[MKK][hapmap];1.00[ASN][1000 genomes]
rs16907268	1.00[ASN][1000 genomes]
rs16907270	1.00[ASN][1000 genomes]
rs16907274	1.00[GIH][hapmap];1.00[ASN][1000 genomes]
rs16907278	1.00[ASN][1000 genomes]
rs16907281	1.00[ASN][1000 genomes]
rs56144030	1.00[ASN][1000 genomes]
rs59670641	1.00[ASN][1000 genomes]
rs7298216	0.88[YRI][hapmap];0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs73292424	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[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

No data

Chromatin state (count:99 , 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	chr12:11919600-11932000	Weak transcription	HSMM	muscle
7	chr12:11919600-11936200	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr12:11919600-11936800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr12:11919800-11932400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr12:11920000-11937800	Weak transcription	NHLF	lung
11	chr12:11921800-11946600	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr12:11922000-11948200	Weak transcription	Colonic Mucosa	Colon
13	chr12:11923600-11934600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr12:11923600-11952000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr12:11925600-11932000	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr12:11925600-11932000	Weak transcription	NH-A	brain
17	chr12:11925800-11938000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr12:11925800-11938000	Weak transcription	HMEC	breast
19	chr12:11926600-11936200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr12:11927000-11936000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr12:11927400-11934400	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr12:11927400-11937400	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr12:11927400-11941400	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr12:11927800-11946200	Weak transcription	Gastric	stomach
25	chr12:11928000-11933400	Weak transcription	Placenta	Placenta
26	chr12:11928000-11946400	Weak transcription	Fetal Intestine Large	intestine
27	chr12:11928200-11932000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr12:11928200-11932400	Weak transcription	Primary B cells from peripheral blood	blood
29	chr12:11928200-11936800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr12:11928200-11938200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr12:11929000-11938200	Weak transcription	Brain Cingulate Gyrus	brain
32	chr12:11929800-11934200	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr12:11929800-11935200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr12:11929800-11946200	Weak transcription	HUVEC	blood vessel
35	chr12:11929800-11948600	Weak transcription	Primary B cells from cord blood	blood
36	chr12:11930000-11934200	Enhancers	Stomach Smooth Muscle	stomach
37	chr12:11930000-11943200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr12:11930400-11932000	Genic enhancers	Monocytes-CD14+_RO01746	blood
39	chr12:11930400-11932200	Enhancers	Left Ventricle	heart
40	chr12:11930400-11932200	Enhancers	Psoas Muscle	Psoas
41	chr12:11930400-11932400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr12:11930400-11934600	Enhancers	Rectal Smooth Muscle	rectum
43	chr12:11930600-11932400	Enhancers	Skeletal Muscle Female	skeletal muscle
44	chr12:11930600-11934000	Enhancers	Fetal Heart	heart
45	chr12:11930800-11932200	Enhancers	Primary T helper cells PMA-I stimulated	--
46	chr12:11930800-11932200	Enhancers	Right Ventricle	heart
47	chr12:11930800-11932600	Enhancers	Brain Anterior Caudate	brain
48	chr12:11930800-11932600	Enhancers	Skeletal Muscle Male	skeletal muscle
49	chr12:11930800-11932800	Enhancers	Adipose Nuclei	Adipose
50	chr12:11930800-11932800	Enhancers	Fetal Lung	lung

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