Variant report

Variant	rs6945380
Chromosome Location	chr7:39115215-39115216
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	chr7:39115125..39117886-chr7:39122371..39124754,2	K562	blood:
2	chr7:39114754..39115416-chr7:39504034..39504891,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000106536	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10248136	0.80[CHB][hapmap];0.85[CHD][hapmap]
rs10464366	0.86[CEU][hapmap];0.94[CHB][hapmap];0.83[CHD][hapmap];0.84[EUR][1000 genomes]
rs10464368	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10951593	0.86[CEU][hapmap];0.94[CHB][hapmap];0.84[EUR][1000 genomes]
rs1116811	0.80[CHB][hapmap];0.81[CHD][hapmap]
rs11765705	0.91[CEU][hapmap];0.94[CHB][hapmap];0.83[CHD][hapmap];0.83[GIH][hapmap]
rs11973171	0.82[CHB][hapmap]
rs12532009	0.80[CHB][hapmap];0.81[CHD][hapmap]
rs12667577	0.81[EUR][1000 genomes]
rs12667652	0.86[CHB][hapmap]
rs12669446	0.82[CHB][hapmap]
rs12670003	0.82[CHB][hapmap]
rs12671046	0.82[CHB][hapmap]
rs13242209	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1525798	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1527952	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.91[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17171519	0.94[CHB][hapmap]
rs2392618	0.84[EUR][1000 genomes]
rs4723819	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6462886	0.94[CHB][hapmap]
rs6944670	0.94[CHB][hapmap]
rs6952464	0.94[CHB][hapmap]
rs6957662	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6974522	0.94[CHB][hapmap]
rs6979210	0.91[CEU][hapmap];0.94[CHB][hapmap]
rs7779853	0.80[CHB][hapmap];0.81[CHD][hapmap]
rs7785889	0.85[CHB][hapmap];0.92[JPT][hapmap]
rs7801660	0.94[CHB][hapmap]
rs885352	0.95[CEU][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024142	chr7:38978728-39300444	Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:39113400-39115400	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr7:39113400-39115400	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr7:39113400-39115400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr7:39113600-39115600	Weak transcription	Fetal Lung	lung
5	chr7:39113600-39123400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr7:39113800-39115400	Enhancers	Placenta	Placenta

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