Variant report

Variant	rs11623920
Chromosome Location	chr14:65819314-65819315
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:65692463..65695041-chr14:65818683..65822827,3	MCF-7	breast:
2	chr14:65813667..65817419-chr14:65818159..65821659,6	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10047879	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs11158591	0.88[EUR][1000 genomes]
rs11621121	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11621604	0.96[CEU][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11627402	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1256540	1.00[YRI][hapmap]
rs12878872	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12881755	0.88[CHB][hapmap];0.88[ASN][1000 genomes]
rs12881911	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12882269	0.96[CEU][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12886005	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12886168	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12895337	0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1815654	0.89[EUR][1000 genomes]
rs1954052	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4899174	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4902391	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4902393	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7143666	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7152441	0.90[ASN][1000 genomes]
rs7157006	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7158347	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs747541	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8014475	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8022094	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832818	chr14:65706859-65882320	Enhancers Strong transcription Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
2	nsv1036403	chr14:65724229-66208114	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
3	nsv1043943	chr14:65782466-66698411	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	55 gene(s)	inside rSNPs	diseases
4	nsv542120	chr14:65782466-66698411	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	55 gene(s)	inside rSNPs	diseases
5	nsv1039168	chr14:65811750-66308343	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:65803400-65821000	Weak transcription	Esophagus	oesophagus
2	chr14:65812000-65822800	Weak transcription	Gastric	stomach
3	chr14:65813800-65821200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr14:65813800-65823600	Weak transcription	Thymus	Thymus
5	chr14:65814000-65821400	Weak transcription	Brain Cingulate Gyrus	brain
6	chr14:65814000-65823400	Weak transcription	Small Intestine	intestine
7	chr14:65814000-65824800	Weak transcription	Primary hematopoietic stem cells	blood
8	chr14:65814200-65819600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr14:65814200-65822200	Weak transcription	Primary T cells from cord blood	blood
10	chr14:65814800-65820800	Weak transcription	Duodenum Mucosa	Duodenum
11	chr14:65814800-65823200	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr14:65815000-65819600	Weak transcription	Stomach Mucosa	stomach
13	chr14:65815200-65819800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr14:65815200-65820000	Weak transcription	Fetal Muscle Leg	muscle
15	chr14:65815400-65819600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr14:65815400-65821200	Weak transcription	Brain Hippocampus Middle	brain
17	chr14:65815400-65824000	Weak transcription	Brain Angular Gyrus	brain
18	chr14:65815600-65819800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr14:65816000-65821200	Weak transcription	Pancreas	Pancrea
20	chr14:65816000-65822800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr14:65816200-65819800	Weak transcription	Placenta	Placenta
22	chr14:65816600-65820600	Weak transcription	Fetal Intestine Large	intestine
23	chr14:65816800-65821200	Enhancers	Primary B cells from cord blood	blood
24	chr14:65816800-65828000	Enhancers	Primary B cells from peripheral blood	blood
25	chr14:65817200-65821000	Weak transcription	Fetal Intestine Small	intestine
26	chr14:65818000-65823400	Enhancers	GM12878-XiMat	blood
27	chr14:65818800-65819800	Weak transcription	Primary hematopoietic stem cells short term culture	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links