Variant report

Variant	rs17188002
Chromosome Location	chr1:209376947-209376948
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	chr1:209376128..209379505-chr1:209382757..209384972,3	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10494918	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17188009	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17188016	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17260224	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs17260245	0.82[AFR][1000 genomes]
rs1933613	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2800930	1.00[CEU][hapmap]
rs55933101	0.87[EUR][1000 genomes]
rs56805778	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57720299	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59563227	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6657861	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73083997	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73085905	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73085915	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73085916	0.83[EUR][1000 genomes]
rs73085919	1.00[ASN][1000 genomes]
rs73085921	0.96[ASN][1000 genomes]
rs74155423	0.83[EUR][1000 genomes]
rs74155426	0.81[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832481	chr1:209371276-209540333	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:209370400-209380800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr1:209373200-209380800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr1:209373200-209381200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr1:209373600-209380400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr1:209375600-209377600	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr1:209376200-209377000	Enhancers	H1 Cell Line	embryonic stem cell
7	chr1:209376200-209377000	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr1:209376200-209378200	Enhancers	Fetal Brain Female	brain
9	chr1:209376200-209378800	Enhancers	Fetal Brain Male	brain
10	chr1:209376400-209377000	Enhancers	H9 Cell Line	embryonic stem cell
11	chr1:209376400-209377000	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr1:209376400-209377000	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr1:209376400-209377000	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr1:209376400-209377200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr1:209376600-209377000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr1:209376600-209377000	Enhancers	iPS-20b Cell Line	embryonic stem cell
17	chr1:209376600-209377200	Enhancers	Brain Germinal Matrix	brain
18	chr1:209376600-209377400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr1:209376800-209377000	Enhancers	Esophagus	oesophagus
20	chr1:209376800-209377600	Weak transcription	Fetal Stomach	stomach
21	chr1:209376800-209380400	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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