Variant report

Variant	rs9421175
Chromosome Location	chr10:116255019-116255020
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:116252911..116255379-chr10:116278820..116280848,2	MCF-7	breast:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11196753	0.90[AMR][1000 genomes]
rs11196758	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11196764	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11196766	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2475224	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2475225	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2475227	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2497679	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2497688	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34374858	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3802737	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7912323	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037308	chr10:116141946-116519765	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv540780	chr10:116141946-116519765	Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	esv3321866	chr10:116253162-116257360	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116214600-116263600	Weak transcription	Rectal Smooth Muscle	rectum
2	chr10:116222200-116264400	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr10:116225000-116267200	Weak transcription	Aorta	Aorta
4	chr10:116225600-116278800	Weak transcription	HSMM	muscle
5	chr10:116243000-116286200	Weak transcription	Spleen	Spleen
6	chr10:116245000-116258800	Weak transcription	Colonic Mucosa	Colon
7	chr10:116247000-116255200	Weak transcription	Fetal Kidney	kidney
8	chr10:116248000-116258200	Weak transcription	Fetal Intestine Large	intestine
9	chr10:116249600-116264800	Weak transcription	Pancreas	Pancrea
10	chr10:116249800-116259400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr10:116250000-116256600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr10:116250000-116256600	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr10:116250000-116256600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr10:116250000-116258400	Weak transcription	Fetal Intestine Small	intestine
15	chr10:116250000-116259400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr10:116250200-116256600	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr10:116250200-116256600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr10:116250200-116264600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr10:116250200-116265200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr10:116251000-116259000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
21	chr10:116251400-116258400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr10:116251400-116259200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
23	chr10:116251600-116255600	Weak transcription	HSMMtube	muscle
24	chr10:116252000-116267200	Weak transcription	Fetal Muscle Trunk	muscle
25	chr10:116252200-116264800	Weak transcription	Brain Substantia Nigra	brain
26	chr10:116252400-116263800	Weak transcription	Hela-S3	cervix
27	chr10:116252600-116255200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr10:116252600-116256600	Weak transcription	Brain Hippocampus Middle	brain
29	chr10:116252600-116256600	Weak transcription	Fetal Brain Male	brain
30	chr10:116252600-116258000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr10:116252600-116258800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr10:116252600-116259400	Weak transcription	Brain Anterior Caudate	brain
33	chr10:116252600-116262800	Weak transcription	Psoas Muscle	Psoas
34	chr10:116252600-116264800	Weak transcription	Brain Inferior Temporal Lobe	brain
35	chr10:116252600-116264800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr10:116252600-116264800	Weak transcription	Stomach Smooth Muscle	stomach
37	chr10:116252800-116255200	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr10:116252800-116258600	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr10:116252800-116259400	Weak transcription	Right Atrium	heart
40	chr10:116253000-116256600	Weak transcription	H1 Cell Line	embryonic stem cell
41	chr10:116253000-116258000	Weak transcription	Small Intestine	intestine
42	chr10:116253000-116258600	Weak transcription	HMEC	breast
43	chr10:116253000-116258800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr10:116253000-116258800	Weak transcription	NHEK	skin
45	chr10:116253200-116256600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
46	chr10:116253200-116258800	Weak transcription	Fetal Thymus	thymus
47	chr10:116253200-116259400	Weak transcription	Gastric	stomach
48	chr10:116253200-116259400	Weak transcription	Thymus	Thymus
49	chr10:116253200-116264600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
50	chr10:116253200-116264800	Weak transcription	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links