Variant report

Variant	rs13389938
Chromosome Location	chr2:57671542-57671543
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	chr2:57670502..57672263-chr2:57675373..57678104,2	MCF-7	breast:

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1022365	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13390017	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13395074	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13403414	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13415195	0.86[EUR][1000 genomes]
rs1518678	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17039650	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17048828	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17048831	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17048835	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17195042	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17807763	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2090567	0.85[EUR][1000 genomes]
rs2310826	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55814076	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57930441	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58806638	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59256639	0.85[EUR][1000 genomes]
rs60691185	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60940014	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66526851	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66647146	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6725986	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67509146	0.86[EUR][1000 genomes]
rs67754544	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67868906	0.86[EUR][1000 genomes]
rs67947086	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs68078812	0.86[EUR][1000 genomes]
rs68095793	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72814520	0.84[EUR][1000 genomes]
rs72814551	0.86[EUR][1000 genomes]
rs72814597	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72816503	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72937396	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72937402	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72939308	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7601574	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:24 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999898	chr2:57193127-57901238	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv535729	chr2:57193127-57901238	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv874185	chr2:57446209-57671691	Enhancers Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1012285	chr2:57453353-57760750	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv874186	chr2:57465803-57671691	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv874187	chr2:57507510-57703467	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv834126	chr2:57518655-57701015	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv1000899	chr2:57537817-57694142	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	nsv874188	chr2:57547114-57671691	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv1007118	chr2:57562051-58147588	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
11	nsv874190	chr2:57577034-57671691	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv874191	chr2:57583029-57671691	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv1003020	chr2:57592640-57681816	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
14	nsv874192	chr2:57600623-57671691	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
15	nsv457997	chr2:57607449-57674580	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
16	nsv582091	chr2:57607449-57674580	Active TSS Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
17	nsv525779	chr2:57607449-57685889	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
18	nsv1006603	chr2:57609335-57712494	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
19	nsv526359	chr2:57616965-57703467	Weak transcription Enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
20	nsv1001176	chr2:57618795-57770261	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
21	nsv458008	chr2:57626992-57671691	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
22	nsv582092	chr2:57626992-57671691	Weak transcription Enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
23	nsv458019	chr2:57626992-57674580	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
24	nsv582093	chr2:57626992-57674580	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:57670400-57671800	Enhancers	HSMMtube	muscle
2	chr2:57670400-57672000	Enhancers	Monocytes-CD14+_RO01746	blood
3	chr2:57670400-57672400	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr2:57670800-57672400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr2:57671000-57671600	Enhancers	Adipose Nuclei	Adipose
6	chr2:57671000-57672200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr2:57671000-57672400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr2:57671200-57672400	Enhancers	Muscle Satellite Cultured Cells	--
9	chr2:57671400-57672400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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