Variant report

Variant	rs2449269
Chromosome Location	chr1:225110408-225110409
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr1:224832360..224832914-chr1:225110011..225110793,2	K562	blood:
2	chr1:225110317..225111909-chr1:225113611..225115449,2	K562	blood:
3	chr1:224888777..224889662-chr1:225110350..225110931,2	K562	blood:
4	chr1:225108934..225110730-chr1:225115605..225118111,2	K562	blood:
5	chr1:225109346..225111069-chr1:225117045..225118611,2	MCF-7	breast:
6	chr1:225110059..225110580-chr14:54623098..54623598,2	MCF-7	breast:
7	chr1:224831768..224834375-chr1:225108469..225110982,2	K562	blood:
8	chr1:224701102..224702030-chr1:225109484..225110930,7	K562	blood:
9	chr1:224701183..224702131-chr1:225110304..225110969,3	MCF-7	breast:
10	chr1:225102785..225104962-chr1:225108843..225110479,2	K562	blood:
11	chr1:224831986..224832789-chr1:225109802..225110521,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000185842	Chromatin interaction
ENSG00000143786	Chromatin interaction

Extended variants
information (count: 134 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:132)

rs_ID	r²[population]
rs10158926	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10495228	0.84[ASN][1000 genomes]
rs10495229	0.80[ASN][1000 genomes]
rs1080260	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10915779	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1110378	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1110379	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12564683	0.85[ASN][1000 genomes]
rs12565019	0.84[ASN][1000 genomes]
rs12565439	0.80[ASN][1000 genomes]
rs12566396	0.80[ASN][1000 genomes]
rs12566886	0.80[ASN][1000 genomes]
rs12567461	0.84[ASN][1000 genomes]
rs12567470	0.84[ASN][1000 genomes]
rs1506069	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1506071	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1506072	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1506074	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1600865	0.97[AFR][1000 genomes];0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs16857787	0.84[ASN][1000 genomes]
rs16858145	0.84[ASN][1000 genomes]
rs16858216	0.84[ASN][1000 genomes]
rs16858299	0.85[ASN][1000 genomes]
rs16858661	0.80[ASN][1000 genomes]
rs16858758	0.80[ASN][1000 genomes]
rs16858766	0.80[ASN][1000 genomes]
rs16858829	0.80[ASN][1000 genomes]
rs16858831	0.80[ASN][1000 genomes]
rs16858932	0.80[ASN][1000 genomes]
rs16858962	0.80[ASN][1000 genomes]
rs1832540	0.87[EUR][1000 genomes]
rs1936629	0.88[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs1936631	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1936635	0.99[ASN][1000 genomes]
rs2014656	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2014667	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2101143	0.84[ASN][1000 genomes]
rs2128268	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2254158	0.85[AMR][1000 genomes]
rs2291227	0.80[ASN][1000 genomes]
rs2406097	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2406098	0.84[ASN][1000 genomes]
rs2449256	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2449258	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2449266	0.82[AFR][1000 genomes]
rs2449281	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2449287	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2449304	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2449315	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2449316	0.80[ASN][1000 genomes]
rs2449320	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2449322	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2456336	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2456349	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2489296	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2489298	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2489300	0.80[ASN][1000 genomes]
rs2489301	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2489303	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2489310	0.97[AFR][1000 genomes];0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2489311	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2489313	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2489314	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2489324	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2489327	0.98[EUR][1000 genomes]
rs2489337	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2489343	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2489346	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2489348	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2489352	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2489353	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2489355	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2501061	0.80[ASN][1000 genomes]
rs2501064	0.80[ASN][1000 genomes]
rs2501066	0.80[ASN][1000 genomes]
rs2501072	0.80[ASN][1000 genomes]
rs2501078	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2501081	0.84[ASN][1000 genomes]
rs2501082	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2501083	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2501085	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2501087	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2501089	0.82[AFR][1000 genomes]
rs2501099	0.82[AMR][1000 genomes]
rs2501100	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2501101	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2501110	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2501120	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2501133	0.83[EUR][1000 genomes]
rs2501140	0.80[ASN][1000 genomes]
rs2501141	0.80[ASN][1000 genomes]
rs2501147	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2501151	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2501153	0.80[ASN][1000 genomes]
rs2501156	0.80[ASN][1000 genomes]
rs2929626	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2939363	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3101904	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3101916	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3101917	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3102106	0.98[EUR][1000 genomes]
rs3102115	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3105564	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3105572	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3120989	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3120991	0.87[EUR][1000 genomes]
rs3120993	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3128654	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3128655	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3128657	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3128664	0.87[EUR][1000 genomes]
rs3128666	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3128667	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4379650	0.80[ASN][1000 genomes]
rs55668169	0.80[ASN][1000 genomes]
rs55754430	0.84[ASN][1000 genomes]
rs56088704	0.80[ASN][1000 genomes]
rs56152573	0.80[ASN][1000 genomes]
rs56203783	0.82[ASN][1000 genomes]
rs57137890	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs59420435	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61211002	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs61466304	0.84[ASN][1000 genomes]
rs6426163	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6686694	0.86[EUR][1000 genomes]
rs6697382	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72629701	0.99[ASN][1000 genomes]
rs72629702	0.99[ASN][1000 genomes]
rs729398	0.84[ASN][1000 genomes]
rs7530659	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7548138	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs995613	0.86[EUR][1000 genomes]

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	esv2757773	chr1:225087924-225253274	Active TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Strong transcription Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	esv2759001	chr1:225087924-225253274	Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:225109800-225110800	Enhancers	Liver	Liver
2	chr1:225110000-225111800	Enhancers	Ovary	ovary
3	chr1:225110200-225117000	Weak transcription	Gastric	stomach
4	chr1:225110400-225112800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr1:225110400-225117000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr1:225110400-225117000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr1:225110400-225117000	Weak transcription	Pancreas	Pancrea

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links