Variant report

Variant	rs12204306
Chromosome Location	chr6:140356048-140356049
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:139694057..139695686-chr6:140355084..140358059,2	K562	blood:

Variant related genes	Relation type
ENSG00000164442	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10457036	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10457699	1.00[JPT][hapmap]
rs10457701	1.00[ASN][1000 genomes]
rs10457702	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11155092	0.90[ASN][1000 genomes]
rs11155093	0.90[ASN][1000 genomes]
rs11155094	0.90[ASN][1000 genomes]
rs11155102	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11754775	0.90[ASN][1000 genomes]
rs12193363	0.90[ASN][1000 genomes]
rs12193742	0.90[ASN][1000 genomes]
rs12194624	0.90[ASN][1000 genomes]
rs12194665	0.90[ASN][1000 genomes]
rs12198042	0.90[ASN][1000 genomes]
rs12198595	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12198639	0.90[ASN][1000 genomes]
rs12198642	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs12202850	1.00[ASN][1000 genomes]
rs12204229	0.90[ASN][1000 genomes]
rs12204849	0.81[ASN][1000 genomes]
rs12205335	1.00[ASN][1000 genomes]
rs12207470	0.90[ASN][1000 genomes]
rs12210493	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12212554	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12214000	0.90[ASN][1000 genomes]
rs12214369	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12214414	0.90[ASN][1000 genomes]
rs12215417	0.90[ASN][1000 genomes]
rs12216315	0.90[ASN][1000 genomes]
rs169291	1.00[ASN][1000 genomes]
rs17516775	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs201284	0.93[ASN][1000 genomes]
rs201285	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2024678	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2064502	0.90[ASN][1000 genomes]
rs34059065	1.00[ASN][1000 genomes]
rs72986764	0.90[ASN][1000 genomes]
rs72986775	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9373254	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9376479	0.90[ASN][1000 genomes]
rs9484322	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs9495596	1.00[JPT][hapmap];0.90[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	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv1016532	chr6:140174639-141029988	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
3	nsv1019508	chr6:140317472-140434466	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1022987	chr6:140344229-140463916	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140339600-140361200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:140351400-140366600	Weak transcription	Aorta	Aorta
3	chr6:140353600-140365600	Weak transcription	Left Ventricle	heart
4	chr6:140355400-140360400	Weak transcription	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links