Variant report

Variant	rs2036858
Chromosome Location	chr4:120249237-120249238
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 90 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10003567	0.80[ASN][1000 genomes]
rs10005237	0.80[ASN][1000 genomes]
rs10015883	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs10024933	0.85[ASN][1000 genomes]
rs10032299	0.83[EUR][1000 genomes]
rs10212714	0.85[ASN][1000 genomes]
rs10212719	0.85[ASN][1000 genomes]
rs10212775	0.80[ASN][1000 genomes]
rs10213158	0.85[ASN][1000 genomes]
rs10213267	0.80[ASN][1000 genomes]
rs10518300	0.85[ASN][1000 genomes]
rs1052633	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11098497	0.81[EUR][1000 genomes]
rs11098498	0.81[EUR][1000 genomes]
rs11098501	0.85[ASN][1000 genomes]
rs11098502	0.85[ASN][1000 genomes]
rs11724409	0.85[ASN][1000 genomes]
rs11724758	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11731571	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11732087	0.80[ASN][1000 genomes]
rs11732621	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11732686	0.85[ASN][1000 genomes]
rs11737400	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12498994	0.85[ASN][1000 genomes]
rs12505469	0.84[ASN][1000 genomes]
rs12506610	0.80[ASN][1000 genomes]
rs12507565	0.85[ASN][1000 genomes]
rs12509621	0.85[ASN][1000 genomes]
rs12510269	0.80[ASN][1000 genomes]
rs12511640	0.85[ASN][1000 genomes]
rs12513083	0.85[ASN][1000 genomes]
rs12711071	0.80[ASN][1000 genomes]
rs13113885	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13117947	0.81[AFR][1000 genomes]
rs13149954	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1511017	0.85[ASN][1000 genomes]
rs1511025	0.80[ASN][1000 genomes]
rs17049949	0.85[ASN][1000 genomes]
rs17595608	0.85[ASN][1000 genomes]
rs1814815	0.98[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1980024	0.85[ASN][1000 genomes]
rs1980025	0.85[ASN][1000 genomes]
rs1980026	0.85[ASN][1000 genomes]
rs1980027	0.85[ASN][1000 genomes]
rs2002049	0.81[ASN][1000 genomes]
rs2017057	0.82[ASN][1000 genomes]
rs2017058	0.98[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2036856	0.85[ASN][1000 genomes]
rs2036857	0.85[ASN][1000 genomes]
rs2036860	0.85[ASN][1000 genomes]
rs2175383	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28363929	0.85[ASN][1000 genomes]
rs28373117	0.85[ASN][1000 genomes]
rs28439855	0.89[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs28580295	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28643450	0.83[ASN][1000 genomes]
rs28652763	0.80[ASN][1000 genomes]
rs28713555	0.85[ASN][1000 genomes]
rs2964	0.80[ASN][1000 genomes]
rs34425882	0.85[ASN][1000 genomes]
rs4107728	0.85[ASN][1000 genomes]
rs4443261	0.85[ASN][1000 genomes]
rs4472123	0.80[ASN][1000 genomes]
rs4643791	0.83[AFR][1000 genomes]
rs62320740	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs66900435	0.85[ASN][1000 genomes]
rs6822808	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6843509	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs714899	0.80[ASN][1000 genomes]
rs72676045	0.83[ASN][1000 genomes]
rs72676046	0.84[ASN][1000 genomes]
rs7659403	0.83[EUR][1000 genomes]
rs7672129	0.85[ASN][1000 genomes]
rs7672372	0.84[ASN][1000 genomes]
rs7672594	0.85[ASN][1000 genomes]
rs7672778	0.85[ASN][1000 genomes]
rs7673476	0.85[ASN][1000 genomes]
rs7689729	0.85[ASN][1000 genomes]
rs878376	0.80[ASN][1000 genomes]
rs9991166	0.80[ASN][1000 genomes]
rs9991959	0.85[ASN][1000 genomes]
rs9993347	0.84[ASN][1000 genomes]
rs9999724	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916641	chr4:119780023-120777320	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv1012868	chr4:120014630-120464880	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	nsv537232	chr4:120014630-120464880	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
4	nsv428769	chr4:120205572-120363323	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv879840	chr4:120227419-120257417	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
6	nsv879841	chr4:120244085-120388406	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
7	nsv879842	chr4:120244085-120424087	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2036858	LOC645513	Cis_1M	lymphoblastoid	RTeQTL
rs2036858	FLJ14186///LOC284701///LOC441124///LOC728624	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:120222000-120251000	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr4:120235600-120251000	Weak transcription	Left Ventricle	heart
3	chr4:120244400-120249800	Weak transcription	Duodenum Mucosa	Duodenum
4	chr4:120245200-120249600	Weak transcription	Fetal Intestine Large	intestine
5	chr4:120245400-120249600	Weak transcription	Fetal Intestine Small	intestine
6	chr4:120248800-120249400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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