Variant report

Variant	rs16846509
Chromosome Location	chr2:142324505-142324506
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10496881	1.00[JPT][hapmap]
rs10496889	0.82[CEU][hapmap]
rs11887304	1.00[JPT][hapmap]
rs11898305	0.82[JPT][hapmap]
rs1483144	0.85[JPT][hapmap]
rs16846216	1.00[JPT][hapmap]
rs16846224	1.00[JPT][hapmap]
rs16846251	1.00[JPT][hapmap]
rs16846274	1.00[JPT][hapmap]
rs16846416	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16846539	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap]
rs16846564	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs16846586	0.85[CEU][hapmap];1.00[YRI][hapmap]
rs16855055	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs16855061	0.87[ASW][hapmap];1.00[CEU][hapmap];0.89[MEX][hapmap];0.88[YRI][hapmap];0.86[EUR][1000 genomes]
rs16855062	0.82[CEU][hapmap];0.88[YRI][hapmap]
rs16855067	0.85[CEU][hapmap];0.89[MEX][hapmap];0.88[YRI][hapmap]
rs17738291	0.82[JPT][hapmap]
rs1905291	0.85[JPT][hapmap]
rs41396347	1.00[JPT][hapmap]
rs4271711	1.00[CHB][hapmap]
rs4491668	1.00[JPT][hapmap]
rs4547471	1.00[JPT][hapmap]
rs4560051	0.85[JPT][hapmap]
rs4575660	0.85[JPT][hapmap]
rs4954914	0.85[JPT][hapmap]
rs62167901	0.82[ASN][1000 genomes]
rs62167934	0.88[ASN][1000 genomes]
rs62167935	0.88[ASN][1000 genomes]
rs6429898	0.84[JPT][hapmap]
rs6708984	0.82[CEU][hapmap];0.82[JPT][hapmap]
rs6717169	0.85[JPT][hapmap]
rs6749551	0.85[JPT][hapmap]
rs72851386	0.82[ASN][1000 genomes]
rs72852436	0.82[ASN][1000 genomes]
rs72852464	0.82[ASN][1000 genomes]
rs72853562	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72853582	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72853591	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs72853599	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72855461	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72855477	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72855499	0.83[EUR][1000 genomes]
rs7576810	0.88[ASN][1000 genomes]
rs7597485	0.85[CEU][hapmap]
rs9287319	1.00[JPT][hapmap]
rs978601	0.82[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv583203	chr2:142055133-142378975	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv875240	chr2:142199421-142347455	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
3	nsv834393	chr2:142256714-142431564	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	n/a
4	nsv459640	chr2:142291211-142345574	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
5	nsv583213	chr2:142291211-142345574	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
6	nsv583214	chr2:142299923-142458316	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
7	nsv1011019	chr2:142314999-142430460	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
8	nsv583215	chr2:142324505-142327418	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
9	esv1798303	chr2:142324505-142327536	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
10	esv1799576	chr2:142324505-142327536	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
11	esv1800912	chr2:142324505-142339047	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:142315200-142327800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr2:142320400-142327800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr2:142323400-142327800	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr2:142323800-142328000	Weak transcription	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links