Variant report

Variant	rs9876497
Chromosome Location	chr3:112396247-112396248
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:112395899..112398398-chr3:112400973..112403700,2	K562	blood:
2	chr3:112358207..112360933-chr3:112392611..112397881,5	MCF-7	breast:
3	chr3:112366603..112369302-chr3:112395665..112397709,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000091986	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs11927615	0.85[CEU][hapmap];0.83[EUR][1000 genomes]
rs12054001	0.85[EUR][1000 genomes]
rs12054416	0.90[CEU][hapmap];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13068244	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13077054	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13088866	0.83[EUR][1000 genomes]
rs13092258	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2399449	0.82[EUR][1000 genomes]
rs28374264	0.83[EUR][1000 genomes]
rs4145150	0.83[EUR][1000 genomes]
rs4145151	0.83[EUR][1000 genomes]
rs55894063	0.84[EUR][1000 genomes]
rs56302621	0.83[EUR][1000 genomes]
rs60397548	0.83[EUR][1000 genomes]
rs6772102	0.84[EUR][1000 genomes]
rs6793555	0.84[EUR][1000 genomes]
rs7630314	0.82[EUR][1000 genomes]
rs9818848	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9821100	0.81[CEU][hapmap];0.87[EUR][1000 genomes]
rs9821161	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9821338	0.85[CEU][hapmap];0.81[GIH][hapmap];0.83[MEX][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9833456	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9845240	0.80[CEU][hapmap];0.83[EUR][1000 genomes]
rs9859566	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9864580	0.93[EUR][1000 genomes]
rs9864774	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3329419	chr3:112236688-112620544	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats 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 target site	39 gene(s)	inside rSNPs	diseases
2	nsv432477	chr3:112390310-112603310	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112389200-112396800	Enhancers	Osteobl	bone
2	chr3:112391400-112407800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr3:112392000-112397200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
4	chr3:112392200-112397400	Enhancers	Placenta Amnion	Placenta Amnion
5	chr3:112394200-112396400	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr3:112394200-112396400	Enhancers	NH-A	brain
7	chr3:112394200-112396600	Enhancers	NHEK	skin
8	chr3:112394800-112396800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
9	chr3:112395000-112396400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr3:112395000-112396400	Enhancers	Primary B cells from peripheral blood	blood
11	chr3:112395000-112396400	Enhancers	Primary T helper cells PMA-I stimulated	--
12	chr3:112395000-112397800	Enhancers	Primary hematopoietic stem cells short term culture	blood
13	chr3:112395200-112396400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr3:112395200-112396400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr3:112395200-112396400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
16	chr3:112395200-112396400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
17	chr3:112395200-112396600	Enhancers	Primary B cells from cord blood	blood
18	chr3:112395200-112396600	Enhancers	HSMM	muscle
19	chr3:112395200-112397600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr3:112395200-112397600	Enhancers	NHLF	lung
21	chr3:112395400-112396400	Enhancers	Adipose Nuclei	Adipose
22	chr3:112395400-112396400	Flanking Active TSS	HSMMtube	muscle
23	chr3:112395400-112396600	Enhancers	Primary hematopoietic stem cells	blood
24	chr3:112395400-112396600	Enhancers	Cortex derived primary cultured neurospheres	brain
25	chr3:112395400-112397000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr3:112395600-112396400	Enhancers	Brain Anterior Caudate	brain
27	chr3:112395600-112396400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr3:112395800-112398400	Enhancers	Primary monocytes fromperipheralblood	blood
29	chr3:112395800-112400800	Weak transcription	Colon Smooth Muscle	Colon
30	chr3:112396000-112396400	Flanking Active TSS	GM12878-XiMat	blood
31	chr3:112396000-112397000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
32	chr3:112396000-112397400	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr3:112396000-112400600	Weak transcription	Rectal Smooth Muscle	rectum
34	chr3:112396200-112396400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr3:112396200-112396400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr3:112396200-112396400	Enhancers	Hela-S3	cervix
37	chr3:112396200-112396600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr3:112396200-112396600	Enhancers	HMEC	breast
39	chr3:112396200-112396800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr3:112396200-112396800	Enhancers	Muscle Satellite Cultured Cells	--
41	chr3:112396200-112397000	Enhancers	K562	blood
42	chr3:112396200-112397200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
43	chr3:112396200-112397200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr3:112396200-112397200	Weak transcription	Primary T cells fromperipheralblood	blood
45	chr3:112396200-112397200	Enhancers	NHDF-Ad	bronchial
46	chr3:112396200-112397800	Enhancers	A549	lung
47	chr3:112396200-112398200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr3:112396200-112400400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr3:112396200-112400400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr3:112396200-112400400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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