Variant report

Variant	rs6724542
Chromosome Location	chr2:54536882-54536883
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10167922	0.84[ASN][1000 genomes]
rs10179958	0.84[ASN][1000 genomes]
rs10194310	0.84[ASN][1000 genomes]
rs11674614	0.85[ASN][1000 genomes]
rs11675478	0.90[ASN][1000 genomes]
rs11678184	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11680886	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs11685447	0.84[ASN][1000 genomes]
rs11690064	0.84[CHD][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs13385842	0.83[ASN][1000 genomes]
rs13405819	0.84[ASN][1000 genomes]
rs17189876	0.86[JPT][hapmap]
rs17268437	1.00[JPT][hapmap]
rs2280717	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs6757915	0.91[ASN][1000 genomes]
rs72917496	0.84[ASN][1000 genomes]
rs72917498	0.84[ASN][1000 genomes]
rs964092	0.83[ASW][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003205	chr2:54220049-54700843	Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	esv2762639	chr2:54220049-54700855	Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv1011790	chr2:54220049-54714553	Flanking Active TSS ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv1002891	chr2:54227005-54682169	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	nsv535722	chr2:54227005-54682169	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
6	nsv1011690	chr2:54255361-54700843	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
7	nsv532512	chr2:54453210-54630755	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	nsv1004632	chr2:54469283-54590480	Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv998172	chr2:54488511-54537474	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv997896	chr2:54517853-54549501	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:54501600-54537600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr2:54517800-54537200	Weak transcription	Brain Anterior Caudate	brain
3	chr2:54533800-54537200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr2:54534000-54537200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr2:54534200-54537000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr2:54534200-54537400	Weak transcription	HMEC	breast
7	chr2:54534400-54537200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr2:54534800-54537600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr2:54535200-54538000	Enhancers	HepG2	liver
10	chr2:54535800-54537400	Enhancers	Placenta Amnion	Placenta Amnion
11	chr2:54536000-54537400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr2:54536200-54537200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr2:54536200-54537400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr2:54536200-54537400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr2:54536200-54538200	Weak transcription	Fetal Lung	lung
16	chr2:54536200-54540400	Weak transcription	Psoas Muscle	Psoas
17	chr2:54536400-54537400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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dbSNP/dbVar ID: rs12345 /nsv7879
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