Variant report

Variant	rs11969988
Chromosome Location	chr6:37869181-37869182
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	chr6:37863569..37866168-chr6:37867163..37869619,2	K562	blood:
2	chr6:37867448..37869643-chr6:37887668..37889578,2	K562	blood:

Extended variants
information (count: 103 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs10428769	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10485030	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10498739	0.81[ASN][1000 genomes]
rs10498740	0.81[ASN][1000 genomes]
rs10947702	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10947704	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11751781	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11751927	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11751962	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11752521	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11752809	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11752814	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11752863	0.82[ASN][1000 genomes]
rs11753300	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11755095	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11755629	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11756713	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11757161	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11759458	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11759496	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11759826	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11967129	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12660919	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12660922	0.81[ASN][1000 genomes]
rs12661378	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12661702	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12662305	0.80[ASN][1000 genomes]
rs12662426	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12664091	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12664768	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13190751	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13195545	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13205214	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13205311	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13206035	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16890185	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16890247	0.82[ASN][1000 genomes]
rs16890267	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16890301	0.88[ASN][1000 genomes]
rs2025431	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2103950	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2273441	0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2274091	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2395689	0.96[ASN][1000 genomes]
rs2645111	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2645125	0.88[AFR][1000 genomes];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2645130	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2842510	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2842511	0.92[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs2842512	0.92[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs2842513	0.87[AFR][1000 genomes]
rs2842521	0.88[AFR][1000 genomes];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34254045	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34450348	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35051126	0.95[ASN][1000 genomes]
rs35122358	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35216205	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35772972	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35849984	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs3844314	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3852216	0.82[ASN][1000 genomes]
rs55679841	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55996712	0.81[AMR][1000 genomes]
rs56023538	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56129320	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56177150	0.81[AMR][1000 genomes]
rs57276677	0.82[ASN][1000 genomes]
rs57402213	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57911756	0.82[ASN][1000 genomes]
rs58333612	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs58611435	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs59036086	0.82[ASN][1000 genomes]
rs59103990	0.81[ASN][1000 genomes]
rs61411293	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6458032	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6903743	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6906289	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6908106	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6910715	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6911716	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6936260	0.83[AMR][1000 genomes]
rs71569402	0.85[ASN][1000 genomes]
rs73419440	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73421436	0.82[ASN][1000 genomes]
rs73421439	0.82[ASN][1000 genomes]
rs7742226	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7745796	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7746266	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7747996	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7748312	0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7759145	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7759792	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7761561	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7762052	0.81[AMR][1000 genomes]
rs7764130	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7773419	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7775794	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]

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	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1024016	chr6:37567651-37981590	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1017051	chr6:37789341-38084719	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv538203	chr6:37789341-38084719	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1018711	chr6:37813397-37981590	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1020625	chr6:37833591-38155622	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37850600-37869200	Weak transcription	Lung	lung
2	chr6:37850600-37890400	Weak transcription	Primary B cells from cord blood	blood
3	chr6:37851000-37869200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:37851000-37884600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr6:37856000-37871000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr6:37857200-37871200	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr6:37857200-37871200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr6:37857200-37871400	Weak transcription	Aorta	Aorta
9	chr6:37857400-37871800	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr6:37857600-37871800	Weak transcription	Right Atrium	heart
11	chr6:37857600-37871800	Weak transcription	Stomach Mucosa	stomach
12	chr6:37857600-37872200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr6:37857600-37886000	Weak transcription	Esophagus	oesophagus
14	chr6:37857600-37895400	Weak transcription	Pancreas	Pancrea
15	chr6:37858000-37877600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr6:37858200-37869400	Weak transcription	Left Ventricle	heart
17	chr6:37858200-37871200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr6:37862000-37871800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr6:37862000-37877000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr6:37862400-37877200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr6:37862400-37884000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr6:37862600-37871800	Weak transcription	Primary hematopoietic stem cells	blood
23	chr6:37862600-37882000	Weak transcription	Fetal Intestine Small	intestine
24	chr6:37862800-37871200	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr6:37862800-37879000	Weak transcription	GM12878-XiMat	blood
26	chr6:37863800-37871200	Weak transcription	Liver	Liver
27	chr6:37864600-37871200	Weak transcription	Small Intestine	intestine
28	chr6:37864600-37880800	Weak transcription	NHDF-Ad	bronchial
29	chr6:37864800-37871000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr6:37865200-37871400	Weak transcription	Brain Anterior Caudate	brain
31	chr6:37865400-37874000	Weak transcription	NHLF	lung
32	chr6:37865600-37871200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr6:37865600-37871200	Weak transcription	Psoas Muscle	Psoas
34	chr6:37865600-37879600	Weak transcription	Thymus	Thymus
35	chr6:37865800-37870200	Weak transcription	Primary T helper cells fromperipheralblood	blood
36	chr6:37865800-37871200	Weak transcription	HUES48 Cell Line	embryonic stem cell
37	chr6:37865800-37871400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
38	chr6:37865800-37871800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
39	chr6:37866000-37871200	Weak transcription	A549	lung
40	chr6:37866000-37885600	Weak transcription	Hela-S3	cervix
41	chr6:37866200-37869400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
42	chr6:37866200-37870600	Weak transcription	K562	blood
43	chr6:37866200-37871200	Weak transcription	HUES64 Cell Line	embryonic stem cell
44	chr6:37866200-37871200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr6:37866200-37871400	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr6:37866200-37871600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr6:37866200-37872000	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr6:37866200-37872400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr6:37866200-37873800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
50	chr6:37866200-37873800	Weak transcription	NH-A	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links