Variant report

Variant	rs59842034
Chromosome Location	chr3:112493382-112493383
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	chr3:112492371..112494990-chr3:112495868..112498193,2	MCF-7	breast:

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11916827	1.00[ASN][1000 genomes]
rs1249885	1.00[ASN][1000 genomes]
rs57349641	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59048040	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72948419	1.00[ASN][1000 genomes]
rs72948422	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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
3	esv3431441	chr3:112453467-113213252	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
4	nsv877343	chr3:112470586-112597706	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112485800-112494400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr3:112486600-112494000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr3:112488000-112501200	Enhancers	NHLF	lung
4	chr3:112490000-112495200	Enhancers	Primary T cells fromperipheralblood	blood
5	chr3:112490000-112495200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
6	chr3:112490200-112494800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr3:112490200-112495600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr3:112490200-112499800	Weak transcription	K562	blood
9	chr3:112491000-112493800	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr3:112491000-112494800	Enhancers	Stomach Mucosa	stomach
11	chr3:112491200-112494600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr3:112491200-112495200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
13	chr3:112491200-112495200	Enhancers	Hela-S3	cervix
14	chr3:112491200-112495600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
15	chr3:112491200-112499600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr3:112491200-112501200	Enhancers	NHDF-Ad	bronchial
17	chr3:112491400-112493600	Weak transcription	Right Atrium	heart
18	chr3:112491400-112494800	Enhancers	Fetal Muscle Leg	muscle
19	chr3:112491600-112493600	Weak transcription	Esophagus	oesophagus
20	chr3:112491600-112495200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
21	chr3:112492000-112494200	Weak transcription	Fetal Muscle Trunk	muscle
22	chr3:112492000-112498000	Weak transcription	Colon Smooth Muscle	Colon
23	chr3:112492200-112493600	Enhancers	Primary T cells from cord blood	blood
24	chr3:112492200-112495000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr3:112492200-112495200	Enhancers	Primary T helper naive cells from peripheral blood	blood
26	chr3:112492200-112495200	Enhancers	Primary T helper cells fromperipheralblood	blood
27	chr3:112492200-112495600	Enhancers	Primary B cells from peripheral blood	blood
28	chr3:112492200-112501600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr3:112492200-112502000	Enhancers	NHEK	skin
30	chr3:112492400-112493600	Weak transcription	Fetal Stomach	stomach
31	chr3:112492400-112493600	Weak transcription	Rectal Smooth Muscle	rectum
32	chr3:112492400-112495200	Enhancers	Primary B cells from cord blood	blood
33	chr3:112492400-112495200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
34	chr3:112492400-112495600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr3:112492600-112493400	Enhancers	Muscle Satellite Cultured Cells	--
36	chr3:112492800-112493400	Enhancers	Primary monocytes fromperipheralblood	blood
37	chr3:112492800-112493400	Enhancers	Fetal Thymus	thymus
38	chr3:112492800-112493800	Enhancers	GM12878-XiMat	blood
39	chr3:112492800-112495000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr3:112492800-112495000	Flanking Active TSS	A549	lung
41	chr3:112492800-112495200	Enhancers	Primary T helper cells PMA-I stimulated	--
42	chr3:112492800-112495200	Enhancers	Adipose Nuclei	Adipose
43	chr3:112492800-112495400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr3:112492800-112501000	Enhancers	HMEC	breast
45	chr3:112492800-112501000	Enhancers	HSMM	muscle
46	chr3:112492800-112501200	Enhancers	Osteobl	bone
47	chr3:112493000-112493800	Enhancers	Duodenum Mucosa	Duodenum
48	chr3:112493000-112493800	Weak transcription	Spleen	Spleen
49	chr3:112493000-112493800	Enhancers	HUVEC	blood vessel
50	chr3:112493000-112494800	Enhancers	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links