Variant report

Variant	rs2823462
Chromosome Location	chr21:17090024-17090025
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr21:17084590..17087490-chr21:17087588..17090287,2	K562	blood:
2	chr21:17083757..17086090-chr21:17088787..17091203,2	K562	blood:
3	chr21:17087356..17090819-chr21:17092657..17096162,4	K562	blood:
4	chr21:17088463..17090416-chr21:17100632..17102945,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000155313	Chromatin interaction

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10482875	0.83[CEU][hapmap];0.82[CHB][hapmap];0.93[CHD][hapmap];0.85[GIH][hapmap];0.85[TSI][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10482876	0.83[CEU][hapmap];0.86[CHD][hapmap];0.85[GIH][hapmap];0.89[JPT][hapmap];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11910884	0.81[CEU][hapmap]
rs11911400	1.00[MEX][hapmap]
rs1543299	0.91[CEU][hapmap];0.85[GIH][hapmap];0.92[TSI][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17241395	0.85[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.87[GIH][hapmap];0.89[JPT][hapmap];0.92[ASN][1000 genomes]
rs17241409	0.84[EUR][1000 genomes]
rs17241416	0.83[CEU][hapmap];0.85[CHB][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17241423	1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17241430	0.83[CEU][hapmap];0.84[EUR][1000 genomes]
rs17241444	0.83[CEU][hapmap];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17307120	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17307170	0.85[EUR][1000 genomes]
rs17307176	0.83[CEU][hapmap]
rs2026853	0.83[CEU][hapmap]
rs2242676	0.83[CEU][hapmap];0.84[EUR][1000 genomes]
rs2404000	0.81[ASN][1000 genomes]
rs2823452	0.85[CEU][hapmap]
rs2823453	0.92[CEU][hapmap]
rs2823455	0.91[CEU][hapmap];0.82[CHB][hapmap];0.86[CHD][hapmap]
rs2823457	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2823463	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2823471	0.83[CEU][hapmap];0.85[CHB][hapmap];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2823472	0.83[CEU][hapmap]
rs2823478	0.83[CEU][hapmap];0.85[GIH][hapmap];0.84[EUR][1000 genomes]
rs2823481	0.89[JPT][hapmap];0.89[ASN][1000 genomes]
rs2823483	0.89[ASN][1000 genomes]
rs2823484	0.89[JPT][hapmap];0.89[ASN][1000 genomes]
rs2823489	0.83[CEU][hapmap]
rs2823491	0.83[CEU][hapmap];0.85[CHB][hapmap];0.93[CHD][hapmap];0.85[GIH][hapmap];0.89[JPT][hapmap];0.89[ASN][1000 genomes]
rs2823493	0.83[CEU][hapmap]
rs2823498	0.83[ASN][1000 genomes]
rs2823499	0.83[CEU][hapmap]
rs2823500	0.83[CEU][hapmap]
rs28627435	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3787577	0.83[CEU][hapmap]
rs4580465	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs460497	0.85[CEU][hapmap]
rs56299770	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56333224	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56410772	0.92[EUR][1000 genomes]
rs56666611	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57733106	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59084861	0.83[ASN][1000 genomes]
rs60191002	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs60529604	0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6517609	0.83[CEU][hapmap]
rs6517613	0.83[CEU][hapmap]
rs6517648	0.83[CEU][hapmap]
rs6517652	0.83[CEU][hapmap]
rs7277807	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[TSI][hapmap];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7278428	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7281511	0.83[CEU][hapmap]
rs7282314	0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7283707	0.83[CEU][hapmap]
rs7283764	1.00[CEU][hapmap];0.82[CHB][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73181987	0.91[EUR][1000 genomes]
rs73355479	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73357260	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73892510	0.92[ASN][1000 genomes]
rs8127158	0.83[CEU][hapmap]
rs8134327	0.91[CEU][hapmap]
rs9983542	0.82[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758530	chr21:16912646-17096678	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv2758810	chr21:16912646-17096678	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	esv2762093	chr21:16948663-17145770	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv1064683	chr21:16954570-17145758	Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv459099	chr21:16956866-17145011	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv587076	chr21:16956866-17145011	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
7	nsv1062105	chr21:16956885-17141961	Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
8	nsv544380	chr21:16956885-17141961	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
9	nsv1059500	chr21:16957752-17145758	Flanking Active TSS Weak transcription Genic enhancers Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
10	esv2830057	chr21:16960590-17113148	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
11	nsv1060139	chr21:17057044-17100275	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	n/a
12	esv2760692	chr21:17084961-17091368	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:0 , 50 per page) page:

No data

Quick Search:

Input of quick search could be:

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

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links