Variant report

Variant	rs1742273
Chromosome Location	chr6:24441758-24441759
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	chr6:24438004..24440295-chr6:24440300..24441957,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1772257	0.87[ASN][1000 genomes]
rs2143083	0.83[JPT][hapmap]
rs2273605	0.85[EUR][1000 genomes]
rs2328824	0.83[JPT][hapmap]
rs2753910	0.88[ASN][1000 genomes]
rs2753911	0.86[ASN][1000 genomes]
rs2753913	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2753927	1.00[CEU][hapmap];0.91[CHB][hapmap];0.85[EUR][1000 genomes]
rs2793423	0.91[CEU][hapmap];0.91[CHB][hapmap];0.83[EUR][1000 genomes]
rs2793424	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2793425	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2793426	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2793427	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7742404	0.81[ASN][1000 genomes]
rs793668	0.87[ASN][1000 genomes]
rs793669	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs793671	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs793672	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs793673	0.91[CHB][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs793681	0.83[EUR][1000 genomes]
rs793683	1.00[CEU][hapmap];0.95[CHB][hapmap];0.85[EUR][1000 genomes]
rs793689	0.85[EUR][1000 genomes]
rs796984	0.90[ASN][1000 genomes]
rs796985	0.95[CHB][hapmap];0.94[JPT][hapmap];0.92[ASN][1000 genomes]
rs9356934	0.90[ASN][1000 genomes]
rs9379660	0.90[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	nsv1026638	chr6:24347972-24475300	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24417400-24451800	Strong transcription	Liver	Liver
2	chr6:24421200-24448800	Weak transcription	Gastric	stomach
3	chr6:24421200-24459600	Weak transcription	Spleen	Spleen
4	chr6:24424000-24456600	Weak transcription	Ovary	ovary
5	chr6:24424400-24445800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr6:24426200-24446000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr6:24426400-24446000	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr6:24427600-24441800	Weak transcription	Primary B cells from peripheral blood	blood
9	chr6:24427600-24445600	Weak transcription	Fetal Brain Female	brain
10	chr6:24427600-24456800	Weak transcription	Lung	lung
11	chr6:24427800-24467000	Weak transcription	Brain Germinal Matrix	brain
12	chr6:24428200-24449400	Weak transcription	Fetal Muscle Trunk	muscle
13	chr6:24428800-24445000	Weak transcription	Psoas Muscle	Psoas
14	chr6:24429000-24447800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:24429000-24494200	Weak transcription	Primary B cells from cord blood	blood
16	chr6:24429200-24455600	Weak transcription	Brain Angular Gyrus	brain
17	chr6:24429400-24445000	Weak transcription	Brain Anterior Caudate	brain
18	chr6:24429400-24483800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr6:24429600-24444800	Weak transcription	HepG2	liver
20	chr6:24429600-24455000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr6:24430800-24448400	Weak transcription	Brain Hippocampus Middle	brain
22	chr6:24432600-24463800	Weak transcription	Fetal Intestine Small	intestine
23	chr6:24433600-24451600	Weak transcription	Adipose Nuclei	Adipose
24	chr6:24437600-24455400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr6:24437800-24450600	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr6:24437800-24459600	Weak transcription	Left Ventricle	heart
27	chr6:24438000-24464000	Weak transcription	Pancreas	Pancrea
28	chr6:24438200-24445400	Weak transcription	Aorta	Aorta
29	chr6:24438200-24447800	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr6:24438200-24455600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
31	chr6:24438400-24445600	Weak transcription	Fetal Muscle Leg	muscle
32	chr6:24438400-24448600	Weak transcription	Right Ventricle	heart
33	chr6:24438400-24483200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr6:24438600-24459800	Weak transcription	Fetal Stomach	stomach
35	chr6:24438800-24469200	Weak transcription	Brain Cingulate Gyrus	brain
36	chr6:24439400-24442000	Enhancers	Fetal Thymus	thymus
37	chr6:24440400-24452000	Weak transcription	Primary T cells from cord blood	blood
38	chr6:24440600-24445400	Weak transcription	Stomach Smooth Muscle	stomach
39	chr6:24441200-24442600	Enhancers	Primary neutrophils fromperipheralblood	blood
40	chr6:24441400-24442000	Enhancers	Skeletal Muscle Female	skeletal muscle
41	chr6:24441400-24452000	Weak transcription	Thymus	Thymus
42	chr6:24441600-24442000	Enhancers	Skeletal Muscle Male	skeletal muscle
43	chr6:24441600-24442000	Enhancers	Hela-S3	cervix
44	chr6:24441600-24442000	Enhancers	K562	blood

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