Variant report

Variant	rs10064486
Chromosome Location	chr5:112396750-112396751
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	chr5:112395182..112396947-chr5:112408525..112410110,2	MCF-7	breast:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10054040	0.86[YRI][hapmap]
rs10054181	0.87[YRI][hapmap]
rs10054341	1.00[ASN][1000 genomes]
rs10064483	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10071753	0.86[YRI][hapmap]
rs10075306	0.85[YRI][hapmap]
rs13356242	1.00[YRI][hapmap]
rs17314002	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs3922410	0.87[YRI][hapmap];0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4235786	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4293906	1.00[CEU][hapmap];0.82[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4337846	0.86[YRI][hapmap]
rs4361505	1.00[CEU][hapmap];0.93[YRI][hapmap];0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7715778	0.82[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv599394	chr5:112185491-112446323	Weak transcription Active TSS Strong transcription Genic enhancers Enhancers Flanking Active TSS 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	31 gene(s)	inside rSNPs	diseases
2	nsv882717	chr5:112336588-112408944	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
3	esv15902	chr5:112369563-112410775	Strong transcription Weak transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv599395	chr5:112370311-112428869	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1018344	chr5:112390951-112458853	Enhancers Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv1032798	chr5:112392380-112408177	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:112363800-112399000	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr5:112363800-112409200	Weak transcription	Colonic Mucosa	Colon
3	chr5:112363800-112417800	Weak transcription	Duodenum Mucosa	Duodenum
4	chr5:112370200-112406600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr5:112371400-112423800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr5:112372800-112396800	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr5:112373000-112398800	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr5:112373200-112399000	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr5:112375000-112402600	Weak transcription	Pancreas	Pancrea
10	chr5:112379600-112399600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr5:112379600-112424200	Weak transcription	Psoas Muscle	Psoas
12	chr5:112383200-112409400	Strong transcription	Liver	Liver
13	chr5:112384000-112453000	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr5:112384200-112411000	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr5:112384600-112398400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr5:112384600-112398800	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr5:112384800-112399000	Weak transcription	Aorta	Aorta
18	chr5:112386000-112397200	Weak transcription	Fetal Heart	heart
19	chr5:112388400-112398800	Weak transcription	Colon Smooth Muscle	Colon
20	chr5:112388600-112397000	Weak transcription	NHLF	lung
21	chr5:112388600-112397200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr5:112388800-112402400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr5:112390000-112397800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr5:112390600-112402400	Weak transcription	Spleen	Spleen
25	chr5:112390800-112410800	Weak transcription	Fetal Intestine Small	intestine
26	chr5:112391200-112398400	Weak transcription	Right Ventricle	heart
27	chr5:112391600-112439000	Weak transcription	Gastric	stomach
28	chr5:112392600-112397600	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr5:112392800-112399000	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr5:112393000-112397000	Genic enhancers	Fetal Muscle Trunk	muscle
31	chr5:112393600-112400200	Weak transcription	Placenta	Placenta
32	chr5:112394000-112398000	Enhancers	Cortex derived primary cultured neurospheres	brain
33	chr5:112394000-112399200	Weak transcription	Ovary	ovary
34	chr5:112394000-112399400	Enhancers	Fetal Thymus	thymus
35	chr5:112394200-112397000	Strong transcription	HMEC	breast
36	chr5:112394200-112397400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr5:112394200-112397800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr5:112394400-112397600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
39	chr5:112394400-112397600	Enhancers	NH-A	brain
40	chr5:112394600-112397200	Enhancers	HSMMtube	muscle
41	chr5:112394600-112397400	Weak transcription	Primary T helper cells PMA-I stimulated	--
42	chr5:112394600-112397600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr5:112394600-112399000	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr5:112394800-112396800	Enhancers	Fetal Stomach	stomach
45	chr5:112394800-112397400	Enhancers	Osteobl	bone
46	chr5:112394800-112397800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr5:112394800-112397800	Enhancers	Primary T cells from cord blood	blood
48	chr5:112394800-112400800	Strong transcription	Esophagus	oesophagus
49	chr5:112395000-112411600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
50	chr5:112395200-112396800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links