Variant report

Variant	rs11206846
Chromosome Location	chr1:57037093-57037094
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:57034051..57037170-chr1:57042979..57045749,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000162407	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10888981	0.81[AFR][1000 genomes]
rs11206845	0.94[AFR][1000 genomes]
rs11800865	0.81[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs11800883	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11810635	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12058536	0.94[AFR][1000 genomes]
rs12059747	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs12059843	0.94[AFR][1000 genomes]
rs12070247	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs12070557	0.94[AFR][1000 genomes]
rs12090895	0.94[AFR][1000 genomes]
rs12098117	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs1418521	1.00[CEU][hapmap];0.84[YRI][hapmap]
rs1572058	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17114100	1.00[CEU][hapmap]
rs17114110	1.00[CEU][hapmap]
rs17114113	1.00[CEU][hapmap]
rs17114115	1.00[CEU][hapmap]
rs17114126	1.00[CEU][hapmap];0.86[YRI][hapmap]
rs17114127	1.00[CEU][hapmap]
rs28673510	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41446844	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56332336	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6661359	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6699960	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6702052	0.94[AFR][1000 genomes]
rs72664373	0.96[ASN][1000 genomes]
rs72664400	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72903425	0.94[AFR][1000 genomes]
rs7539051	0.94[CHB][hapmap];0.86[JPT][hapmap];0.89[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869295	chr1:56894955-57656562	Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57016000-57038600	Weak transcription	HSMMtube	muscle
2	chr1:57017400-57039400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr1:57017800-57040800	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr1:57025600-57040000	Weak transcription	Fetal Muscle Trunk	muscle
5	chr1:57029400-57042200	Weak transcription	Thymus	Thymus
6	chr1:57032000-57038800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr1:57032200-57038000	Weak transcription	Primary neutrophils fromperipheralblood	blood
8	chr1:57032200-57040600	Weak transcription	HSMM	muscle
9	chr1:57032400-57042400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr1:57032800-57037600	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr1:57032800-57038200	Weak transcription	Osteobl	bone
12	chr1:57032800-57039200	Weak transcription	Small Intestine	intestine
13	chr1:57032800-57041000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr1:57033000-57038200	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr1:57033000-57038800	Weak transcription	Fetal Brain Male	brain
16	chr1:57033800-57039800	Enhancers	iPS-18 Cell Line	embryonic stem cell
17	chr1:57034200-57038200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr1:57035200-57037800	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr1:57035200-57039600	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr1:57035200-57039600	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr1:57035200-57039600	Enhancers	Fetal Intestine Large	intestine
22	chr1:57035200-57041400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
23	chr1:57035400-57037200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
24	chr1:57035400-57037400	Enhancers	Fetal Intestine Small	intestine
25	chr1:57035400-57037600	Genic enhancers	Fetal Lung	lung
26	chr1:57035400-57038000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr1:57035400-57038200	Genic enhancers	Muscle Satellite Cultured Cells	--
28	chr1:57035400-57039400	Enhancers	Brain Substantia Nigra	brain
29	chr1:57035400-57039400	Enhancers	Stomach Mucosa	stomach
30	chr1:57035400-57039600	Transcr. at gene 5' and 3'	NHDF-Ad	bronchial
31	chr1:57035400-57039800	Enhancers	Brain Angular Gyrus	brain
32	chr1:57035600-57037200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr1:57035600-57038800	Enhancers	Adipose Nuclei	Adipose
34	chr1:57035600-57038800	Enhancers	HepG2	liver
35	chr1:57035800-57037800	Weak transcription	Right Ventricle	heart
36	chr1:57035800-57038200	Weak transcription	Duodenum Mucosa	Duodenum
37	chr1:57035800-57038600	Weak transcription	Aorta	Aorta
38	chr1:57035800-57039000	Enhancers	A549	lung
39	chr1:57035800-57039800	Weak transcription	Lung	lung
40	chr1:57036200-57037400	Weak transcription	Brain Germinal Matrix	brain
41	chr1:57036400-57038200	Enhancers	Fetal Muscle Leg	muscle
42	chr1:57036400-57040800	Enhancers	H1 Cell Line	embryonic stem cell
43	chr1:57036600-57037200	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr1:57036600-57037200	ZNF genes & repeats	Fetal Kidney	kidney
45	chr1:57036600-57038000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
46	chr1:57036600-57038400	Enhancers	Brain Hippocampus Middle	brain
47	chr1:57036600-57039000	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr1:57036600-57039000	Genic enhancers	NHLF	lung
49	chr1:57036600-57039400	Enhancers	Placenta	Placenta
50	chr1:57036600-57039600	Transcr. at gene 5' and 3'	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links