Variant report

Variant	rs12040121
Chromosome Location	chr1:79955597-79955598
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10874038	0.84[ASN][1000 genomes]
rs12021904	0.91[ASN][1000 genomes]
rs12023367	1.00[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12025658	1.00[AMR][1000 genomes]
rs12026767	1.00[AMR][1000 genomes]
rs12026857	1.00[AMR][1000 genomes]
rs12027492	1.00[AMR][1000 genomes]
rs12027888	1.00[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12027892	0.83[ASN][1000 genomes]
rs12028685	1.00[AMR][1000 genomes]
rs12029642	1.00[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12030013	1.00[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12030299	1.00[AMR][1000 genomes]
rs12034665	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12036905	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12037641	1.00[AMR][1000 genomes]
rs12039488	1.00[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12039867	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12039920	1.00[AMR][1000 genomes]
rs12039923	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12040033	1.00[AMR][1000 genomes]
rs12040237	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12040880	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12041108	1.00[AMR][1000 genomes]
rs12041180	0.91[ASN][1000 genomes]
rs12041732	1.00[AMR][1000 genomes]
rs12041849	1.00[AMR][1000 genomes]
rs12042159	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12043955	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12044515	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12044896	0.91[ASN][1000 genomes]
rs12044901	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12045663	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12045991	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12046726	0.91[ASN][1000 genomes]
rs12047490	1.00[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12047951	0.91[ASN][1000 genomes]
rs12048746	0.91[ASN][1000 genomes]
rs12049068	0.91[ASN][1000 genomes]
rs12049507	1.00[AMR][1000 genomes]
rs17098662	1.00[AMR][1000 genomes]
rs17103209	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs17103224	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs17103273	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs17103305	1.00[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs17103314	0.88[ASN][1000 genomes]
rs17103450	1.00[AMR][1000 genomes]
rs2088103	0.91[ASN][1000 genomes]
rs2132054	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs3000143	0.91[ASN][1000 genomes]
rs3000144	0.91[ASN][1000 genomes]
rs3000145	0.91[ASN][1000 genomes]
rs3000146	0.91[ASN][1000 genomes]
rs3015018	0.91[ASN][1000 genomes]
rs7525048	1.00[AMR][1000 genomes]
rs9425165	0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1004014	chr1:79811049-80042309	Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1012004	chr1:79945395-80096748	Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv535017	chr1:79945395-80096748	Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1012296	chr1:79945395-80300216	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1005022	chr1:79950774-80106902	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:79951600-79960400	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr1:79954400-79956400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr1:79955000-79956200	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr1:79955000-79956200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr1:79955000-79958600	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr1:79955000-79958800	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr1:79955400-79956400	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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