Variant report

Variant	rs12060857
Chromosome Location	chr1:196261877-196261878
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10922051	0.80[AMR][1000 genomes]
rs11801881	0.84[AMR][1000 genomes]
rs11804991	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12058062	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1924755	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1924757	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1924759	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1925331	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1925332	0.84[AMR][1000 genomes]
rs2025599	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2245414	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2477354	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2477356	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2477359	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2477361	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2477554	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2477558	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4379659	0.86[AMR][1000 genomes]
rs533228	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs564157	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs660711	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7547827	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs912760	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9970935	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv872952	chr1:196174790-196304223	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv548741	chr1:196186750-196293493	Bivalent Enhancer Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv832237	chr1:196205674-196328500	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv469680	chr1:196259846-196419016	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv482746	chr1:196259846-196419016	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:196244600-196272400	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr1:196249200-196281400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr1:196250800-196271600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr1:196251000-196271600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr1:196252200-196272200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr1:196253200-196271600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr1:196256600-196302800	Weak transcription	Ovary	ovary
8	chr1:196258600-196267600	Weak transcription	Liver	Liver

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

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