Variant report

Variant	rs875412
Chromosome Location	chr2:20333960-20333961
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:20331753..20338544-chr2:20423396..20426851,7	MCF-7	breast:
2	chr2:20333229..20337003-chr2:20421997..20425401,4	MCF-7	breast:
3	chr2:20248673..20250285-chr2:20331318..20334095,2	K562	blood:
4	chr2:20332851..20335555-chr2:20339124..20341592,3	K562	blood:
5	chr2:20333298..20335083-chr2:20336801..20339415,3	MCF-7	breast:
6	chr2:20318146..20319802-chr2:20331839..20334216,2	MCF-7	breast:
7	chr2:20332825..20334861-chr2:20412416..20414197,2	MCF-7	breast:
8	chr2:20328337..20331162-chr2:20332733..20334257,2	K562	blood:

No data

No data

No data

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs13019898	0.80[JPT][hapmap]
rs13023666	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6744463	1.00[CEU][hapmap];0.94[CHB][hapmap];0.93[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6753830	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs875411	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs973128	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs975951	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009521	chr2:20310479-20388959	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1012841	chr2:20328894-20415168	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:20326400-20334800	Weak transcription	Esophagus	oesophagus
2	chr2:20326400-20336800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr2:20331000-20334000	Weak transcription	Stomach Mucosa	stomach
4	chr2:20331000-20335000	Weak transcription	Liver	Liver
5	chr2:20331000-20335600	Weak transcription	NHEK	skin
6	chr2:20331200-20334800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr2:20331200-20335000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr2:20331200-20335400	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr2:20331200-20335800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr2:20331400-20335600	Weak transcription	Fetal Lung	lung
11	chr2:20331600-20334000	Weak transcription	HMEC	breast
12	chr2:20331600-20337000	Weak transcription	Colonic Mucosa	Colon
13	chr2:20331800-20335600	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr2:20331800-20338600	Weak transcription	Small Intestine	intestine
15	chr2:20332000-20335600	Weak transcription	Fetal Intestine Small	intestine
16	chr2:20332200-20364400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr2:20333000-20335600	Weak transcription	Fetal Kidney	kidney
18	chr2:20333600-20335400	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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