Variant report

Variant	rs4902393
Chromosome Location	chr14:65839514-65839515
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:65838757..65840955-chr14:65879033..65881007,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000033170	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11158591	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11621121	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11621604	0.96[CEU][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11623920	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11627402	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12878872	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12881755	0.88[CHB][hapmap];0.86[ASN][1000 genomes]
rs12881911	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12882269	0.96[CEU][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12886005	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12886168	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12895337	0.93[ASN][1000 genomes]
rs1815654	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1954052	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4899174	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4902391	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7143666	0.93[ASN][1000 genomes]
rs7152441	0.90[ASN][1000 genomes]
rs7157006	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7158347	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs747541	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8014475	0.93[ASN][1000 genomes]
rs8022094	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[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:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:65824400-65839800	Weak transcription	Primary T cells from cord blood	blood
2	chr14:65824600-65839800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr14:65826400-65840000	Weak transcription	Brain Substantia Nigra	brain
4	chr14:65829200-65840000	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr14:65834200-65843800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr14:65834400-65839600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr14:65834600-65840200	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr14:65836400-65839600	Weak transcription	NHEK	skin
9	chr14:65836400-65840000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr14:65836600-65839600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr14:65836600-65839800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr14:65836600-65840000	Weak transcription	Brain Cingulate Gyrus	brain
13	chr14:65836600-65840200	Weak transcription	Brain Hippocampus Middle	brain
14	chr14:65836800-65839800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
15	chr14:65837600-65840000	Enhancers	Placenta	Placenta
16	chr14:65838600-65840000	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr14:65838600-65840000	Weak transcription	NHDF-Ad	bronchial
18	chr14:65838800-65839600	Enhancers	GM12878-XiMat	blood
19	chr14:65838800-65840000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr14:65838800-65841600	Weak transcription	Duodenum Mucosa	Duodenum
21	chr14:65839000-65840000	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr14:65839000-65840000	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr14:65839000-65840000	Weak transcription	Gastric	stomach
24	chr14:65839000-65840000	Weak transcription	Stomach Mucosa	stomach
25	chr14:65839000-65840000	Weak transcription	HepG2	liver
26	chr14:65839400-65840600	Enhancers	Primary B cells from peripheral blood	blood

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