Variant report

Variant	rs905097
Chromosome Location	chr5:42168443-42168444
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 125 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:117)

rs_ID	r²[population]
rs10037143	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10050512	0.88[EUR][1000 genomes]
rs10052738	1.00[CEU][hapmap]
rs10054119	0.83[EUR][1000 genomes]
rs10060873	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10064990	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10073423	0.88[EUR][1000 genomes]
rs10078494	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10079521	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10461734	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10461735	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10461736	0.88[EUR][1000 genomes]
rs10462034	0.86[EUR][1000 genomes]
rs1073273	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1110874	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1119855	0.95[ASN][1000 genomes]
rs11954853	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12153093	0.88[EUR][1000 genomes]
rs12514243	0.96[ASN][1000 genomes]
rs12515833	0.91[ASN][1000 genomes]
rs12517161	0.96[ASN][1000 genomes]
rs12519296	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs12522095	0.83[ASN][1000 genomes]
rs13189999	0.87[EUR][1000 genomes]
rs1354108	0.98[EUR][1000 genomes]
rs1393017	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs1393018	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs1501513	1.00[EUR][1000 genomes]
rs1501515	0.89[ASN][1000 genomes]
rs1501516	0.99[EUR][1000 genomes]
rs1501517	0.99[EUR][1000 genomes]
rs1501518	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1501519	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1501528	0.88[ASN][1000 genomes]
rs17586491	0.80[ASN][1000 genomes]
rs17586526	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17586540	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1827329	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1827330	0.98[EUR][1000 genomes]
rs1827331	0.99[EUR][1000 genomes]
rs1875430	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1909950	0.88[ASN][1000 genomes]
rs1909951	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1995351	0.99[EUR][1000 genomes]
rs202299	0.82[ASN][1000 genomes]
rs2134102	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2161581	0.82[ASN][1000 genomes]
rs276233	0.82[ASN][1000 genomes]
rs276234	0.82[ASN][1000 genomes]
rs276237	0.82[ASN][1000 genomes]
rs276239	0.82[ASN][1000 genomes]
rs276240	0.82[ASN][1000 genomes]
rs276242	0.82[ASN][1000 genomes]
rs276243	0.82[ASN][1000 genomes]
rs276246	0.82[ASN][1000 genomes]
rs276270	0.84[ASN][1000 genomes]
rs276277	0.86[ASN][1000 genomes]
rs276289	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs276290	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs276291	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs276294	0.82[ASN][1000 genomes]
rs276306	0.82[ASN][1000 genomes]
rs276307	0.82[ASN][1000 genomes]
rs276309	0.80[ASN][1000 genomes]
rs276311	0.82[ASN][1000 genomes]
rs276315	0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs34035285	0.85[EUR][1000 genomes]
rs34813199	0.83[EUR][1000 genomes]
rs35005365	0.85[EUR][1000 genomes]
rs35707555	0.86[EUR][1000 genomes]
rs3885984	0.88[EUR][1000 genomes]
rs3913458	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3913459	0.97[EUR][1000 genomes]
rs4242098	0.87[EUR][1000 genomes]
rs4305644	0.86[EUR][1000 genomes]
rs4320267	0.85[EUR][1000 genomes]
rs4342369	0.82[ASN][1000 genomes]
rs4358567	0.82[ASN][1000 genomes]
rs4401612	0.86[ASN][1000 genomes]
rs4404722	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4457090	0.86[EUR][1000 genomes]
rs4460174	0.95[EUR][1000 genomes]
rs4489104	0.95[EUR][1000 genomes]
rs4533937	0.95[EUR][1000 genomes]
rs4590218	0.82[ASN][1000 genomes]
rs4626371	0.91[ASN][1000 genomes]
rs4957190	0.82[ASN][1000 genomes]
rs4957191	0.82[ASN][1000 genomes]
rs4957192	0.82[ASN][1000 genomes]
rs4957203	0.99[EUR][1000 genomes]
rs4957204	0.99[EUR][1000 genomes]
rs4957446	0.82[ASN][1000 genomes]
rs4957447	0.82[ASN][1000 genomes]
rs4957449	1.00[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs4957464	0.91[ASN][1000 genomes]
rs58911119	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6451589	0.82[ASN][1000 genomes]
rs6451592	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6451605	0.80[EUR][1000 genomes]
rs666080	0.82[ASN][1000 genomes]
rs6861819	0.86[EUR][1000 genomes]
rs6872878	0.87[EUR][1000 genomes]
rs6888449	0.88[EUR][1000 genomes]
rs6890248	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7341123	0.82[ASN][1000 genomes]
rs7708373	0.82[ASN][1000 genomes]
rs7708493	0.82[ASN][1000 genomes]
rs7713544	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7715104	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7715374	0.85[EUR][1000 genomes]
rs7718368	0.95[EUR][1000 genomes]
rs905099	0.91[ASN][1000 genomes]
rs9292843	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9292848	0.83[EUR][1000 genomes]
rs931230	0.91[ASN][1000 genomes]
rs931231	0.82[ASN][1000 genomes]
rs990898	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933208	chr5:41879946-42876624	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	112 gene(s)	inside rSNPs	diseases
2	nsv492147	chr5:41902086-42896162	Enhancers Flanking Active TSS Active TSS Genic enhancers Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	113 gene(s)	inside rSNPs	diseases
3	nsv1032171	chr5:42015138-42220940	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv462125	chr5:42019110-42192620	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
5	nsv597885	chr5:42019110-42192620	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
6	nsv1034208	chr5:42119128-42290759	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
7	nsv969219	chr5:42147728-42169988	ZNF genes & repeats Enhancers Weak transcription Strong transcription	Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
8	nsv4813	chr5:42157598-42202029	Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:42168200-42168800	Enhancers	H1 Cell Line	embryonic stem cell
2	chr5:42168400-42168800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr5:42168400-42168800	Enhancers	HUES6 Cell Line	embryonic stem cell
4	chr5:42168400-42168800	Enhancers	Esophagus	oesophagus
5	chr5:42168400-42169000	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr5:42168400-42169200	Enhancers	HUES64 Cell Line	embryonic stem cell

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