Variant report

Variant	rs2298257
Chromosome Location	chr1:225039594-225039595
allele	A/G
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:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:224888278..224889586-chr1:225038704..225039646,5	MCF-7	breast:
2	chr1:224700475..224701243-chr1:225038899..225039835,3	MCF-7	breast:
3	chr1:224888426..224889670-chr1:225038968..225039823,3	K562	blood:
4	chr1:224701135..224702071-chr1:225038782..225040015,6	K562	blood:
5	chr1:224828694..224829292-chr1:225039053..225039774,2	MCF-7	breast:
6	chr1:224701549..224702083-chr1:225038942..225039865,2	MCF-7	breast:
7	chr1:224831973..224833573-chr1:225038934..225041311,18	MCF-7	breast:
8	chr1:225004248..225005816-chr1:225039220..225040837,2	MCF-7	breast:
9	chr1:224888452..224889183-chr1:225039336..225039976,2	MCF-7	breast:
10	chr1:225037838..225040570-chr1:225044190..225046369,2	MCF-7	breast:
11	chr1:225038859..225040446-chr1:225045344..225047450,2	MCF-7	breast:
12	chr1:224861153..224861782-chr1:225038916..225039745,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000143786	Chromatin interaction

Extended variants
information (count: 97 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs10495228	0.86[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs10495229	0.87[JPT][hapmap]
rs12097622	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12561993	0.87[JPT][hapmap];0.88[YRI][hapmap]
rs12563857	0.86[JPT][hapmap];0.88[YRI][hapmap]
rs12564683	0.82[ASN][1000 genomes]
rs12565019	0.83[ASN][1000 genomes]
rs12565439	0.86[JPT][hapmap];0.88[YRI][hapmap]
rs12566857	0.87[JPT][hapmap];0.88[YRI][hapmap]
rs12567091	0.87[JPT][hapmap];0.88[YRI][hapmap]
rs12567461	0.83[ASN][1000 genomes]
rs12567470	0.82[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs12567499	0.86[JPT][hapmap];0.88[YRI][hapmap]
rs1316512	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1361923	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1482279	0.87[JPT][hapmap]
rs1482280	0.86[JPT][hapmap];0.88[YRI][hapmap]
rs1506070	0.86[JPT][hapmap];0.88[YRI][hapmap]
rs1600865	0.82[ASN][1000 genomes]
rs16856396	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16856435	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16856463	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16856829	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16857787	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs16858145	0.82[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs16858216	0.82[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs16858299	0.82[ASN][1000 genomes]
rs16858661	0.87[JPT][hapmap];0.88[YRI][hapmap]
rs16858758	0.86[JPT][hapmap];0.88[YRI][hapmap]
rs16858829	0.87[JPT][hapmap]
rs16858831	0.86[JPT][hapmap];0.85[YRI][hapmap]
rs16858932	0.86[JPT][hapmap];0.88[YRI][hapmap]
rs16858962	0.80[JPT][hapmap];0.88[YRI][hapmap]
rs1806563	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1892121	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1905114	0.86[JPT][hapmap]
rs1905115	0.88[YRI][hapmap]
rs1936629	0.82[ASN][1000 genomes]
rs1936632	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1961688	0.86[JPT][hapmap];0.88[YRI][hapmap]
rs1982707	0.87[JPT][hapmap];0.88[YRI][hapmap]
rs2101143	0.82[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs2252950	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2291227	0.83[JPT][hapmap];0.88[YRI][hapmap]
rs2406098	0.81[ASN][1000 genomes]
rs2449259	0.86[JPT][hapmap]
rs2449273	0.87[JPT][hapmap]
rs2449274	0.87[JPT][hapmap]
rs2449276	0.86[JPT][hapmap]
rs2449292	0.86[JPT][hapmap]
rs2449311	0.86[JPT][hapmap]
rs2449316	0.81[ASN][1000 genomes]
rs2456335	0.87[JPT][hapmap]
rs2456339	0.87[JPT][hapmap]
rs2456340	0.87[JPT][hapmap]
rs2489302	0.80[ASN][1000 genomes]
rs2489310	0.82[ASN][1000 genomes]
rs2489322	0.87[JPT][hapmap]
rs2501061	0.85[JPT][hapmap]
rs2501064	0.86[JPT][hapmap]
rs2501066	0.86[JPT][hapmap]
rs2501072	0.86[JPT][hapmap]
rs2501078	0.92[JPT][hapmap]
rs2501081	0.83[ASN][1000 genomes]
rs2501107	0.80[JPT][hapmap]
rs2501108	0.80[JPT][hapmap]
rs2501114	0.87[JPT][hapmap]
rs2501129	0.87[JPT][hapmap]
rs2501130	0.86[JPT][hapmap]
rs2501135	0.86[JPT][hapmap]
rs2501141	0.87[JPT][hapmap]
rs2501156	0.87[JPT][hapmap]
rs2662929	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2800234	0.99[ASN][1000 genomes]
rs2802552	0.80[CEU][hapmap];0.87[JPT][hapmap]
rs2802556	0.82[AFR][1000 genomes]
rs2802563	0.81[AMR][1000 genomes]
rs2802568	0.96[EUR][1000 genomes]
rs2802732	0.96[EUR][1000 genomes]
rs2802733	0.95[EUR][1000 genomes]
rs2802744	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2997478	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2997501	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3012182	0.86[JPT][hapmap]
rs4379650	0.81[ASN][1000 genomes]
rs4587536	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55635719	0.92[ASN][1000 genomes]
rs55752315	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55754430	0.82[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs56203783	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs56237431	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61466304	0.82[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs61540517	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6697156	0.87[JPT][hapmap];0.88[YRI][hapmap]
rs729398	0.82[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs7523949	0.80[JPT][hapmap];0.88[YRI][hapmap]
rs7531542	0.87[JPT][hapmap];0.87[YRI][hapmap]

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:225038600-225040000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr1:225038600-225040600	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr1:225038800-225039800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr1:225038800-225040800	Enhancers	Pancreas	Pancrea
5	chr1:225038800-225041200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr1:225039000-225042000	Enhancers	Dnd41	blood
7	chr1:225039200-225040200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr1:225039400-225039800	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr1:225039400-225040000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
10	chr1:225039400-225040000	Enhancers	H9 Cell Line	embryonic stem cell
11	chr1:225039400-225040200	Enhancers	H1 Cell Line	embryonic stem cell
12	chr1:225039400-225040200	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr1:225039400-225040800	Enhancers	HUES48 Cell Line	embryonic stem cell
14	chr1:225039400-225040800	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr1:225039400-225040800	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr1:225039400-225040800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links