Variant report

Variant	rs259682
Chromosome Location	chr6:37871091-37871092
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	chr6:37862675..37865303-chr6:37870950..37872525,2	K562	blood:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs11756656	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12211975	0.88[EUR][1000 genomes]
rs174105	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs187741	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1979759	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2055205	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2180514	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2201646	0.84[ASN][1000 genomes]
rs2395687	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs259672	0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs259674	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs259675	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs259676	0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs259677	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs259678	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs259683	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs259685	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs259687	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs259688	0.92[ASN][1000 genomes]
rs259693	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs259694	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs259714	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs259717	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs259723	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3792706	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4142102	0.86[EUR][1000 genomes]
rs4711522	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4711524	0.87[ASN][1000 genomes]
rs4714118	0.90[ASN][1000 genomes]
rs6458030	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6458036	0.91[ASN][1000 genomes]
rs67133782	0.87[EUR][1000 genomes]
rs67479083	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6912097	0.85[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs6915506	0.87[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs6917668	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6920185	0.88[ASN][1000 genomes]
rs6934617	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7765798	0.85[ASN][1000 genomes]
rs9369029	0.86[ASN][1000 genomes]
rs9394469	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs9394471	0.85[ASN][1000 genomes]
rs9462374	0.91[ASN][1000 genomes]
rs9470714	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9470723	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9470724	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9470725	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9647620	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[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:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37850600-37890400	Weak transcription	Primary B cells from cord blood	blood
2	chr6:37851000-37884600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr6:37857200-37871200	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr6:37857200-37871200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr6:37857200-37871400	Weak transcription	Aorta	Aorta
6	chr6:37857400-37871800	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr6:37857600-37871800	Weak transcription	Right Atrium	heart
8	chr6:37857600-37871800	Weak transcription	Stomach Mucosa	stomach
9	chr6:37857600-37872200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr6:37857600-37886000	Weak transcription	Esophagus	oesophagus
11	chr6:37857600-37895400	Weak transcription	Pancreas	Pancrea
12	chr6:37858000-37877600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr6:37858200-37871200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr6:37862000-37871800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr6:37862000-37877000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr6:37862400-37877200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr6:37862400-37884000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr6:37862600-37871800	Weak transcription	Primary hematopoietic stem cells	blood
19	chr6:37862600-37882000	Weak transcription	Fetal Intestine Small	intestine
20	chr6:37862800-37871200	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr6:37862800-37879000	Weak transcription	GM12878-XiMat	blood
22	chr6:37863800-37871200	Weak transcription	Liver	Liver
23	chr6:37864600-37871200	Weak transcription	Small Intestine	intestine
24	chr6:37864600-37880800	Weak transcription	NHDF-Ad	bronchial
25	chr6:37865200-37871400	Weak transcription	Brain Anterior Caudate	brain
26	chr6:37865400-37874000	Weak transcription	NHLF	lung
27	chr6:37865600-37871200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
28	chr6:37865600-37871200	Weak transcription	Psoas Muscle	Psoas
29	chr6:37865600-37879600	Weak transcription	Thymus	Thymus
30	chr6:37865800-37871200	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr6:37865800-37871400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
32	chr6:37865800-37871800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
33	chr6:37866000-37871200	Weak transcription	A549	lung
34	chr6:37866000-37885600	Weak transcription	Hela-S3	cervix
35	chr6:37866200-37871200	Weak transcription	HUES64 Cell Line	embryonic stem cell
36	chr6:37866200-37871200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr6:37866200-37871400	Weak transcription	HUES6 Cell Line	embryonic stem cell
38	chr6:37866200-37871600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr6:37866200-37872000	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr6:37866200-37872400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr6:37866200-37873800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
42	chr6:37866200-37873800	Weak transcription	NH-A	brain
43	chr6:37866400-37871800	Weak transcription	HMEC	breast
44	chr6:37866400-37873000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
45	chr6:37866600-37871200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr6:37868000-37872200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr6:37868200-37871200	Weak transcription	Pancreatic Islets	Pancreatic Islet
48	chr6:37869000-37871200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr6:37869400-37877000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr6:37869600-37873800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links