Variant report

Variant	rs10768021
Chromosome Location	chr11:33708056-33708057
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:33382588..33385319-chr11:33707872..33709435,2	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10501128	1.00[CEU][hapmap];0.86[CHB][hapmap];0.97[CHD][hapmap];0.88[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10768019	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10768020	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10836100	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11032341	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11032343	0.93[CEU][hapmap];0.92[CHB][hapmap];0.91[JPT][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11032344	1.00[CEU][hapmap];0.92[CHB][hapmap];0.91[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1569764	0.97[ASN][1000 genomes]
rs34565296	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4142964	0.97[ASN][1000 genomes]
rs4356198	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7127596	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7928865	0.91[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	nsv832113	chr11:33609202-33767781	Transcr. at gene 5' and 3' Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10768021	HIPK3	cis	cerebellum	SCAN
rs10768021	LDLRAD3	cis	parietal	SCAN
rs10768021	CCDC73	cis	parietal	SCAN

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:33691000-33712400	Weak transcription	Psoas Muscle	Psoas
2	chr11:33694000-33713600	Weak transcription	Fetal Brain Female	brain
3	chr11:33704200-33711200	Weak transcription	Lung	lung
4	chr11:33704400-33712200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr11:33705200-33710400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr11:33705200-33710400	Weak transcription	Pancreas	Pancrea
7	chr11:33706000-33708200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr11:33706000-33709400	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr11:33706000-33714200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr11:33706200-33712200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr11:33706200-33712200	Weak transcription	Brain Germinal Matrix	brain
12	chr11:33706200-33712400	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr11:33706600-33709600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr11:33706600-33714200	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr11:33706800-33708200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr11:33706800-33710400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr11:33706800-33712600	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr11:33707000-33709200	Weak transcription	HMEC	breast
19	chr11:33707000-33709200	Weak transcription	NHEK	skin
20	chr11:33707000-33709800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr11:33707000-33709800	Weak transcription	NHLF	lung
22	chr11:33707000-33712200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr11:33707200-33709200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr11:33707200-33709600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr11:33707800-33709600	Weak transcription	NHDF-Ad	bronchial
26	chr11:33708000-33708400	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr11:33708000-33709400	Weak transcription	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