Variant report

Variant	rs11800865
Chromosome Location	chr1:57033171-57033172
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	chr1:57008382..57010027-chr1:57032714..57034391,2	MCF-7	breast:
2	chr1:57015989..57018935-chr1:57031658..57034048,2	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11206845	0.87[AFR][1000 genomes]
rs11206846	0.81[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs11800883	0.82[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs11810635	0.87[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs12058536	0.87[AFR][1000 genomes]
rs12059747	0.87[AFR][1000 genomes]
rs12059843	0.87[AFR][1000 genomes]
rs12070247	0.87[AFR][1000 genomes]
rs12070557	0.87[AFR][1000 genomes]
rs12090895	0.87[AFR][1000 genomes]
rs12098117	0.87[AFR][1000 genomes]
rs1572058	0.84[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs28673510	0.87[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs41446844	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs56332336	0.84[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs6661359	0.87[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs6702052	0.87[AFR][1000 genomes]
rs72664373	0.84[ASN][1000 genomes]
rs72903425	0.87[AFR][1000 genomes]
rs7539051	0.87[AFR][1000 genomes];0.84[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:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57016000-57038600	Weak transcription	HSMMtube	muscle
2	chr1:57017400-57035400	Weak transcription	Esophagus	oesophagus
3	chr1:57017400-57035400	Weak transcription	Fetal Thymus	thymus
4	chr1:57017400-57039400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr1:57017800-57040800	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr1:57025600-57040000	Weak transcription	Fetal Muscle Trunk	muscle
7	chr1:57026000-57033200	Enhancers	Fetal Intestine Large	intestine
8	chr1:57027000-57034200	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr1:57027400-57034200	Enhancers	Brain Anterior Caudate	brain
10	chr1:57027400-57034400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr1:57027800-57033200	Enhancers	Brain Cingulate Gyrus	brain
12	chr1:57027800-57034400	Enhancers	Brain Substantia Nigra	brain
13	chr1:57028000-57035400	Weak transcription	Colonic Mucosa	Colon
14	chr1:57028800-57034400	Weak transcription	Lung	lung
15	chr1:57028800-57035400	Weak transcription	Gastric	stomach
16	chr1:57029400-57042200	Weak transcription	Thymus	Thymus
17	chr1:57030000-57035400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr1:57030800-57036800	Weak transcription	Rectal Smooth Muscle	rectum
19	chr1:57031000-57033600	Enhancers	HUES6 Cell Line	embryonic stem cell
20	chr1:57031000-57035400	Weak transcription	Primary B cells from peripheral blood	blood
21	chr1:57032000-57033600	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr1:57032000-57034200	Weak transcription	Psoas Muscle	Psoas
23	chr1:57032000-57035400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr1:57032000-57035400	Weak transcription	Spleen	Spleen
25	chr1:57032000-57035400	Genic enhancers	NHDF-Ad	bronchial
26	chr1:57032000-57035600	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr1:57032000-57036800	Weak transcription	Fetal Stomach	stomach
28	chr1:57032000-57038800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr1:57032200-57033400	Weak transcription	Placenta	Placenta
30	chr1:57032200-57034600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr1:57032200-57035400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr1:57032200-57035400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr1:57032200-57035400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr1:57032200-57035400	Weak transcription	Ovary	ovary
35	chr1:57032200-57035400	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr1:57032200-57035400	Weak transcription	Rectal Mucosa Donor 29	rectum
37	chr1:57032200-57035400	Weak transcription	Stomach Mucosa	stomach
38	chr1:57032200-57038000	Weak transcription	Primary neutrophils fromperipheralblood	blood
39	chr1:57032200-57040600	Weak transcription	HSMM	muscle
40	chr1:57032400-57035400	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr1:57032400-57035400	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr1:57032400-57035400	Weak transcription	Fetal Muscle Leg	muscle
43	chr1:57032400-57035400	Weak transcription	Right Ventricle	heart
44	chr1:57032400-57042400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
45	chr1:57032600-57035200	Weak transcription	A549	lung
46	chr1:57032600-57035600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr1:57032600-57035600	Weak transcription	Adipose Nuclei	Adipose
48	chr1:57032600-57036800	Weak transcription	Fetal Heart	heart
49	chr1:57032800-57033200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr1:57032800-57034000	Strong transcription	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links