Variant report

Variant	rs17798579
Chromosome Location	chr3:159200834-159200835
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11921554	1.00[CEU][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap]
rs11922740	0.85[AFR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11928594	0.80[CEU][hapmap];0.88[CHB][hapmap];0.90[JPT][hapmap]
rs1387692	0.94[CEU][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1489909	0.94[CEU][hapmap];0.80[JPT][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1489916	1.00[CEU][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16847208	0.83[CEU][hapmap];0.80[JPT][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2222328	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs34173495	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs66727256	0.85[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs67390539	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs71312273	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs727234	0.94[CEU][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv998949	chr3:158774806-159394550	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
2	nsv877695	chr3:159152259-159254385	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv877696	chr3:159184569-159257961	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv877697	chr3:159198139-159259124	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159200000-159201200	Enhancers	ES-I3 Cell Line	embryonic stem cell
2	chr3:159200000-159201200	Enhancers	HUES64 Cell Line	embryonic stem cell
3	chr3:159200000-159201400	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr3:159200200-159201200	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr3:159200400-159201000	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr3:159200400-159201200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
7	chr3:159200400-159201200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr3:159200400-159201200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
9	chr3:159200600-159201400	Bivalent Enhancer	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr3:159200800-159201000	Enhancers	iPS-20b Cell Line	embryonic stem cell
11	chr3:159200800-159202000	Weak transcription	H9 Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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