Variant report

Variant	rs11946238
Chromosome Location	chr4:30825695-30825696
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:30821360..30824099-chr4:30824392..30825995,2	MCF-7	breast:

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10025293	0.85[EUR][1000 genomes]
rs10027054	0.84[EUR][1000 genomes]
rs10517216	1.00[CHB][hapmap];0.83[JPT][hapmap];0.92[ASN][1000 genomes]
rs11721555	0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs11723028	0.90[ASN][1000 genomes]
rs11941127	0.81[ASN][1000 genomes]
rs12509289	0.88[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12513276	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13135261	0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs13138213	0.83[CEU][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1345147	0.84[EUR][1000 genomes]
rs1348923	1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1374650	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1374651	0.92[ASN][1000 genomes]
rs1374652	1.00[CHB][hapmap];0.82[JPT][hapmap];0.92[ASN][1000 genomes]
rs1374654	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1447371	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16884042	0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs16884047	0.81[ASN][1000 genomes]
rs16884163	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1823196	0.88[CEU][hapmap];0.81[EUR][1000 genomes]
rs1823197	0.87[CEU][hapmap];0.91[JPT][hapmap];0.84[EUR][1000 genomes]
rs1900571	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2029202	0.83[ASN][1000 genomes]
rs2121656	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2121659	1.00[CHB][hapmap];0.82[JPT][hapmap];0.92[ASN][1000 genomes]
rs2166718	0.83[ASN][1000 genomes]
rs34211313	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6810526	0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs6811850	1.00[CHB][hapmap];0.82[JPT][hapmap];0.89[ASN][1000 genomes]
rs6819990	0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs6842641	1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6842866	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6844742	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6845219	0.83[ASN][1000 genomes]
rs7664916	0.83[ASN][1000 genomes]
rs7682792	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7687637	0.84[ASN][1000 genomes]
rs7700046	0.89[YRI][hapmap]
rs958274	0.87[CEU][hapmap];0.91[JPT][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv4285	chr4:30815642-30838784	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv499039	chr4:30819213-30830142	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv878810	chr4:30823157-30987395	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv998450	chr4:30823631-31628179	Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:30813800-30835800	Weak transcription	Colon Smooth Muscle	Colon
2	chr4:30823800-30826600	Weak transcription	HUVEC	blood vessel
3	chr4:30823800-30827000	Weak transcription	Fetal Muscle Leg	muscle
4	chr4:30824200-30826200	Weak transcription	Stomach Smooth Muscle	stomach
5	chr4:30824200-30826400	Weak transcription	NH-A	brain
6	chr4:30824200-30826800	Weak transcription	HSMM	muscle
7	chr4:30824800-30826400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr4:30825200-30826400	Enhancers	Fetal Heart	heart
9	chr4:30825200-30826800	Weak transcription	Hela-S3	cervix
10	chr4:30825200-30835800	Weak transcription	Aorta	Aorta

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