Variant report

Variant	rs11188230
Chromosome Location	chr10:96982020-96982021
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	chr10:96980306..96982138-chr10:96989812..96992321,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000234026	Chromatin interaction

Extended variants
information (count: 106 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs10128123	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10218877	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10509682	0.85[ASN][1000 genomes]
rs10509683	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10786186	0.85[ASN][1000 genomes]
rs10786188	0.85[ASN][1000 genomes]
rs10882542	0.85[ASN][1000 genomes]
rs10882551	0.85[ASN][1000 genomes]
rs10882562	0.85[ASN][1000 genomes]
rs10882564	0.85[ASN][1000 genomes]
rs10882565	0.85[ASN][1000 genomes]
rs10882566	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10882568	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10882569	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11188214	0.85[ASN][1000 genomes]
rs11188219	0.85[ASN][1000 genomes]
rs11188223	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[ASN][1000 genomes]
rs11188225	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.85[ASN][1000 genomes]
rs11188227	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11188228	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11188229	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11188238	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11572093	0.82[CHB][hapmap]
rs11598953	1.00[JPT][hapmap]
rs11599884	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11872	1.00[JPT][hapmap]
rs12245722	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12262878	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12354433	0.85[ASN][1000 genomes]
rs12413028	0.84[CEU][hapmap];0.88[EUR][1000 genomes]
rs12415795	0.84[CEU][hapmap];0.88[EUR][1000 genomes]
rs12769820	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12783947	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1341164	0.82[CHB][hapmap]
rs16872	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs17451604	0.85[ASN][1000 genomes]
rs17524438	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1934955	0.82[CHB][hapmap]
rs1934957	0.82[CHB][hapmap]
rs1934982	0.82[CHB][hapmap]
rs1934983	0.82[CHB][hapmap]
rs2071426	0.85[CHB][hapmap]
rs2185571	0.82[CHB][hapmap]
rs2449809	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2478477	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2478478	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2478479	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2478480	0.86[ASN][1000 genomes]
rs34999658	0.85[ASN][1000 genomes]
rs35306243	0.85[ASN][1000 genomes]
rs35999600	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs489807	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs509736	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs513661	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs519833	0.86[ASN][1000 genomes]
rs589801	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs591157	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs591171	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs592055	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs594448	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs595420	0.86[ASN][1000 genomes]
rs595478	0.86[ASN][1000 genomes]
rs600929	0.86[ASN][1000 genomes]
rs602941	0.86[ASN][1000 genomes]
rs610046	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs610837	0.86[ASN][1000 genomes]
rs611343	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs611371	0.86[ASN][1000 genomes]
rs612490	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs613340	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs614682	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs61871367	0.89[EUR][1000 genomes]
rs621299	0.86[ASN][1000 genomes]
rs626415	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs627173	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs627719	0.86[ASN][1000 genomes]
rs628102	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs631107	0.80[ASN][1000 genomes]
rs632361	0.86[ASN][1000 genomes]
rs632979	0.82[ASN][1000 genomes]
rs633345	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs637465	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs637939	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs648695	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs649770	0.83[ASN][1000 genomes]
rs6583967	0.82[CHB][hapmap]
rs659949	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs660026	0.86[ASN][1000 genomes]
rs664093	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs667499	0.82[ASN][1000 genomes]
rs669360	0.86[ASN][1000 genomes]
rs672860	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs685607	0.85[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs688706	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs689207	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs695217	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs701886	0.86[ASN][1000 genomes]
rs7089303	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs752417	0.85[ASN][1000 genomes]
rs7909072	0.95[CEU][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs815250	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv497859	chr10:96058024-97027747	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv529726	chr10:96632494-97106315	Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	esv21432	chr10:96856006-96996043	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	esv1834151	chr10:96925446-96992955	Flanking Active TSS Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	esv15160	chr10:96942869-97074756	Bivalent Enhancer Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96944200-96990400	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr10:96956200-96990400	Weak transcription	Aorta	Aorta
3	chr10:96960200-96988800	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr10:96961800-96989400	Weak transcription	Primary T cells from cord blood	blood
5	chr10:96962000-96990000	Weak transcription	Fetal Intestine Small	intestine
6	chr10:96965000-96988000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr10:96965400-96983000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr10:96965400-96989400	Weak transcription	Fetal Intestine Large	intestine
9	chr10:96969200-96990200	Weak transcription	Left Ventricle	heart
10	chr10:96969400-96984800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr10:96969400-96990400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr10:96970200-96992400	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr10:96971800-96989400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr10:96972200-96988000	Weak transcription	Adipose Nuclei	Adipose
15	chr10:96972400-96987400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr10:96972400-96987800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr10:96972600-96989600	Weak transcription	Fetal Thymus	thymus
18	chr10:96975400-96990200	Weak transcription	Primary hematopoietic stem cells	blood
19	chr10:96975600-96990000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr10:96976000-96990000	Weak transcription	Primary B cells from cord blood	blood
21	chr10:96976400-96989600	Weak transcription	GM12878-XiMat	blood
22	chr10:96976800-96987400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr10:96978400-96988000	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr10:96978600-96987600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr10:96980200-96988000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr10:96980200-96989400	Weak transcription	Fetal Heart	heart
27	chr10:96981000-96987800	Weak transcription	HMEC	breast
28	chr10:96981400-96986800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr10:96981400-96987800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr10:96981400-96988000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr10:96981600-96987400	Weak transcription	NHDF-Ad	bronchial
32	chr10:96981600-96988000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
33	chr10:96981600-96988400	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr10:96981800-96982600	Enhancers	Pancreatic Islets	Pancreatic Islet
35	chr10:96981800-96983200	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr10:96981800-96983400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr10:96981800-96983400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr10:96981800-96984000	Weak transcription	HUES6 Cell Line	embryonic stem cell
39	chr10:96981800-96988000	Weak transcription	H1 Cell Line	embryonic stem cell
40	chr10:96981800-96988000	Weak transcription	HSMM	muscle
41	chr10:96981800-96988000	Weak transcription	NHLF	lung
42	chr10:96981800-96989200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr10:96982000-96984600	Weak transcription	A549	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links