Variant report

Variant	rs12293939
Chromosome Location	chr11:93385938-93385939
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:93385405..93388385-chr17:41464736..41467755,3	K562	blood:
2	chr11:93384857..93386804-chr11:93393751..93396000,2	MCF-7	breast:
3	chr11:93384737..93386704-chr11:93387448..93389310,2	K562	blood:

Variant related genes	Relation type
ENSG00000166004	Chromatin interaction
ENSG00000188825	Chromatin interaction

Extended variants
information (count: 100 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10047479	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10047481	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10047484	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1011008	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10128669	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10128725	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10128726	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10501805	0.92[YRI][hapmap]
rs10741470	0.92[ASN][1000 genomes]
rs10741471	0.86[CHB][hapmap];0.92[ASN][1000 genomes]
rs10765626	0.85[ASN][1000 genomes]
rs10765628	0.86[CHB][hapmap];0.92[ASN][1000 genomes]
rs10831085	0.86[CHB][hapmap];0.92[ASN][1000 genomes]
rs11020438	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11020448	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11020467	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11020468	0.85[YRI][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11020469	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11020477	0.86[CHB][hapmap];0.88[JPT][hapmap];0.92[ASN][1000 genomes]
rs11020493	0.86[CHB][hapmap];0.82[ASN][1000 genomes]
rs11822965	1.00[EUR][1000 genomes]
rs11828991	1.00[EUR][1000 genomes]
rs12271543	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12274112	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12276266	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12277621	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12278092	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12278291	1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12279634	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12279657	0.86[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12283126	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12284176	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12291408	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13377252	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13377541	0.87[YRI][hapmap];0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16919124	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1784203	0.86[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1944100	0.86[CHB][hapmap];0.92[ASN][1000 genomes]
rs1944101	0.86[CHB][hapmap];0.92[ASN][1000 genomes]
rs1944105	0.88[ASN][1000 genomes]
rs1954994	0.86[CHB][hapmap];0.92[ASN][1000 genomes]
rs2155245	0.82[ASN][1000 genomes]
rs2155246	0.86[CHB][hapmap];0.88[JPT][hapmap];0.92[ASN][1000 genomes]
rs2155248	0.82[ASN][1000 genomes]
rs2186686	0.86[CHB][hapmap];0.92[ASN][1000 genomes]
rs2288505	1.00[CHB][hapmap]
rs2298706	0.86[CHB][hapmap]
rs2298707	0.86[CHB][hapmap]
rs2509840	0.86[CHB][hapmap];0.82[ASN][1000 genomes]
rs3737461	0.86[CHB][hapmap]
rs3802770	0.86[CHB][hapmap]
rs3802771	0.86[CHB][hapmap]
rs3802773	0.86[CHB][hapmap]
rs3802774	0.86[CHB][hapmap]
rs3802775	0.86[CHB][hapmap]
rs3819173	0.86[CHB][hapmap]
rs4303196	0.82[ASN][1000 genomes]
rs4753097	0.86[CHB][hapmap];0.92[ASN][1000 genomes]
rs4753099	0.92[ASN][1000 genomes]
rs4753101	0.83[ASN][1000 genomes]
rs4753488	0.86[CHB][hapmap];0.92[ASN][1000 genomes]
rs56705833	1.00[EUR][1000 genomes]
rs58111338	1.00[EUR][1000 genomes]
rs58454195	0.90[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs60224981	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60410024	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61904920	1.00[EUR][1000 genomes]
rs61904941	1.00[EUR][1000 genomes]
rs61904958	1.00[EUR][1000 genomes]
rs61918530	1.00[EUR][1000 genomes]
rs61918547	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61918549	1.00[EUR][1000 genomes]
rs61918550	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61918551	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61918553	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61918554	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61918555	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61918557	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61921277	1.00[EUR][1000 genomes]
rs623510	0.86[CHB][hapmap];0.82[ASN][1000 genomes]
rs630648	0.86[CHB][hapmap];0.82[ASN][1000 genomes]
rs631116	0.86[CHB][hapmap];0.82[ASN][1000 genomes]
rs643924	0.82[ASN][1000 genomes]
rs648162	0.86[CHB][hapmap];0.82[ASN][1000 genomes]
rs674150	1.00[EUR][1000 genomes]
rs7109091	0.89[AMR][1000 genomes]
rs7109215	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7111581	1.00[EUR][1000 genomes]
rs7113200	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7128116	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7130267	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7926876	0.86[CHB][hapmap];0.92[ASN][1000 genomes]
rs7930519	0.86[CHB][hapmap];0.85[YRI][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7937523	0.86[CHB][hapmap];0.92[ASN][1000 genomes]
rs7941230	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs7949850	0.86[CHB][hapmap];0.95[ASN][1000 genomes]
rs7952443	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv898181	chr11:93072843-93662459	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
2	nsv975401	chr11:93364502-93390549	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv898182	chr11:93381845-93637462	Strong transcription Genic enhancers Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	108 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:93379000-93387800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr11:93379000-93388800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr11:93385000-93386800	Enhancers	Monocytes-CD14+_RO01746	blood
4	chr11:93385200-93389600	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr11:93385400-93387000	Enhancers	GM12878-XiMat	blood
6	chr11:93385400-93388800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr11:93385600-93386400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr11:93385800-93386800	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr11:93385800-93388400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links