Variant report

Variant	rs6545677
Chromosome Location	chr2:58211509-58211510
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10172212	0.83[JPT][hapmap]
rs10188070	0.94[JPT][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes]
rs1040224	0.89[CEU][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs1040225	0.89[CEU][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs12620940	0.83[AMR][1000 genomes]
rs12622856	0.84[JPT][hapmap]
rs12713370	0.96[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1401100	0.81[CEU][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1518393	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1518394	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1518395	0.96[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1518399	0.84[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1568252	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs1568253	0.85[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1568254	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2043890	0.83[JPT][hapmap]
rs2139053	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2139054	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2176546	0.83[ASN][1000 genomes]
rs2312141	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2312147	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2465804	0.89[CEU][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2678870	0.86[CEU][hapmap];1.00[JPT][hapmap]
rs2678880	0.89[CEU][hapmap];1.00[JPT][hapmap]
rs2678881	0.81[ASN][1000 genomes]
rs2678889	0.85[CEU][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2678890	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2678891	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2678896	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2678897	1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2678901	0.89[CEU][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2678903	0.89[CEU][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2678904	0.81[ASN][1000 genomes]
rs2678905	0.89[CEU][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2678906	0.89[CEU][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2678908	0.89[CEU][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs2678910	0.86[EUR][1000 genomes]
rs2717001	0.89[CEU][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2717002	0.89[CEU][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2717004	0.89[CEU][hapmap];1.00[JPT][hapmap]
rs2717006	0.96[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2717007	0.81[ASN][1000 genomes]
rs2717015	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2717019	0.86[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap]
rs2717023	0.85[CEU][hapmap];1.00[JPT][hapmap]
rs2717024	0.85[CEU][hapmap];1.00[JPT][hapmap]
rs2717027	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2717031	0.85[CEU][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2717032	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2717035	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2717036	0.85[CEU][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2717040	0.81[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2717041	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2717043	0.86[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap]
rs28718871	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6732310	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs848287	0.83[JPT][hapmap]
rs932188	0.89[ASN][1000 genomes]
rs961522	0.84[EUR][1000 genomes]
rs966721	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs968653	0.80[AMR][1000 genomes]
rs970941	0.83[CEU][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.83[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	nsv874196	chr2:57946148-58220320	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv834159	chr2:58101262-58283655	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv525988	chr2:58161520-58427786	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv874200	chr2:58163178-58262016	Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv458041	chr2:58196110-58237724	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv582096	chr2:58196110-58237724	ZNF genes & repeats Enhancers Active TSS Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:58201000-58212200	Weak transcription	Primary B cells from cord blood	blood
2	chr2:58209600-58214800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr2:58209600-58214800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr2:58210800-58211800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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