Variant report

Variant	rs2420441
Chromosome Location	chr2:124837809-124837810
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1017462	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs11123018	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11123021	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs11679532	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs11679636	0.81[CEU][hapmap];0.92[CHB][hapmap];0.94[GIH][hapmap];0.89[JPT][hapmap];0.82[MEX][hapmap];0.88[TSI][hapmap];0.86[EUR][1000 genomes]
rs11693515	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs11896523	0.88[JPT][hapmap]
rs11896878	0.91[CHB][hapmap];0.96[CHD][hapmap];0.81[GIH][hapmap];0.94[JPT][hapmap]
rs12465377	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12473154	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12473184	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12475898	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs13032868	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs1347873	0.91[CHB][hapmap];0.89[JPT][hapmap]
rs1347874	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs1347875	0.91[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.94[JPT][hapmap];0.96[ASN][1000 genomes]
rs1439134	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs1439135	0.91[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1439138	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1583715	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap]
rs17271252	0.82[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap]
rs17271568	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs1866479	0.91[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1898787	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs2043886	0.89[JPT][hapmap]
rs2420439	0.99[ASN][1000 genomes]
rs2901197	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs3902861	0.91[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap]
rs4340523	0.89[JPT][hapmap]
rs4362567	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs4452145	0.91[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.89[JPT][hapmap]
rs4456715	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs4473382	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap]
rs4588195	0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs6730550	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap]
rs6746702	0.84[CHB][hapmap];0.81[JPT][hapmap]
rs7566987	0.91[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap]
rs951032	0.93[ASN][1000 genomes]
rs980374	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs991481	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.89[JPT][hapmap];0.95[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531408	chr2:124727329-125011247	Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv2762279	chr2:124827023-124840027	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:124835400-124838800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr2:124836600-124839600	Enhancers	Fetal Intestine Small	intestine
3	chr2:124837400-124838600	Enhancers	Duodenum Mucosa	Duodenum
4	chr2:124837800-124839200	Weak transcription	Fetal Intestine Large	intestine

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