Variant report

Variant	rs3868872
Chromosome Location	chr3:54744173-54744174
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	chr3:54738031..54740045-chr3:54741949..54744426,2	K562	blood:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10510773	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12488046	0.94[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs12490327	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12490953	0.90[CHB][hapmap];0.91[JPT][hapmap]
rs12496821	1.00[CHB][hapmap]
rs13068008	0.82[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap]
rs13070126	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13081682	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13083683	0.84[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap]
rs13084602	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13086256	0.83[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13088416	0.94[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs13095178	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs13096365	0.85[ASN][1000 genomes]
rs13100029	0.89[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.82[ASN][1000 genomes]
rs1344671	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1520575	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs17815840	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs1829549	0.86[ASN][1000 genomes]
rs1882320	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1882322	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1921548	0.83[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs2099019	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs36061401	0.90[ASN][1000 genomes]
rs3852006	0.94[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3864001	0.94[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3906509	0.88[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4083342	0.94[CEU][hapmap];0.80[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6798481	0.86[ASN][1000 genomes]
rs6808464	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72870697	0.83[ASN][1000 genomes]
rs7618235	0.90[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs7623961	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.93[YRI][hapmap];0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7636321	0.90[CHB][hapmap];1.00[JPT][hapmap]

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	nsv1014595	chr3:53944473-54846754	Enhancers Bivalent Enhancer Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv834700	chr3:54637374-54803896	Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:54741600-54746400	Weak transcription	Fetal Muscle Leg	muscle
2	chr3:54742200-54745400	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr3:54743000-54744200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr3:54743400-54744600	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr3:54743400-54745200	Enhancers	H1 Cell Line	embryonic stem cell
6	chr3:54743600-54744800	Enhancers	iPS-15b Cell Line	embryonic stem cell
7	chr3:54743600-54745400	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr3:54743800-54744400	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr3:54743800-54745400	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr3:54743800-54745800	Enhancers	H9 Cell Line	embryonic stem cell
11	chr3:54743800-54751400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr3:54744000-54744200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
13	chr3:54744000-54744200	Enhancers	HUES48 Cell Line	embryonic stem cell

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