Variant report

Variant	rs11206979
Chromosome Location	chr1:57627037-57627038
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	chr1:57571164..57573212-chr1:57625317..57627807,2	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11206981	1.00[MEX][hapmap]
rs12059674	0.93[ASW][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.83[YRI][hapmap];0.91[AFR][1000 genomes]
rs12066679	0.85[AFR][1000 genomes]
rs12096519	0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12164608	0.85[AFR][1000 genomes]
rs155291	1.00[MEX][hapmap]
rs17115142	1.00[EUR][1000 genomes]
rs17115200	1.00[EUR][1000 genomes]
rs17115212	1.00[MEX][hapmap]
rs59459799	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61454371	1.00[EUR][1000 genomes]
rs7556553	1.00[EUR][1000 genomes]
rs9651187	1.00[MEX][hapmap]

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	nsv869295	chr1:56894955-57656562	Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats 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	nsv461628	chr1:57463326-57816489	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv546305	chr1:57463326-57816489	Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57621400-57627800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr1:57622000-57628000	Weak transcription	Pancreas	Pancrea
3	chr1:57623200-57635400	Weak transcription	Fetal Intestine Small	intestine
4	chr1:57623800-57629000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr1:57624000-57644800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr1:57624200-57628600	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr1:57624200-57628800	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr1:57624400-57628600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr1:57624400-57629000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr1:57624600-57628400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr1:57624800-57627600	Weak transcription	Fetal Brain Female	brain
12	chr1:57624800-57628000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr1:57626000-57628200	Enhancers	H9 Cell Line	embryonic stem cell
14	chr1:57626000-57628600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr1:57626200-57627200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr1:57626200-57627800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr1:57626400-57627800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr1:57626400-57628000	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr1:57626400-57628000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr1:57626400-57629000	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr1:57626400-57629000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr1:57627000-57628600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr1:57627000-57629400	Enhancers	Fetal Brain Male	brain
24	chr1:57627000-57629800	Enhancers	Cortex derived primary cultured neurospheres	brain

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