Variant report

Variant	rs17040025
Chromosome Location	chr4:110084952-110084953
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:110082933..110084960-chr4:110089604..110092200,2	K562	blood:
2	chr4:110082933..110086429-chr4:110088174..110092200,3	K562	blood:
3	chr4:110067338..110070197-chr4:110082520..110085183,2	K562	blood:
4	chr4:110083199..110085490-chr4:110086567..110088342,2	K562	blood:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10007809	1.00[MEX][hapmap];0.87[AMR][1000 genomes]
rs10030903	1.00[MEX][hapmap]
rs10033402	0.87[AMR][1000 genomes]
rs10488875	1.00[CEU][hapmap];0.86[JPT][hapmap];0.91[EUR][1000 genomes]
rs11939502	0.87[AMR][1000 genomes]
rs12640529	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12649586	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17039896	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17039914	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17040052	0.84[JPT][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17040089	0.88[GIH][hapmap];1.00[TSI][hapmap]
rs17040097	0.88[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs2007788	0.82[CHB][hapmap]
rs2526439	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2526446	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2526448	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2704105	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2704111	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28503704	0.87[AMR][1000 genomes]
rs35128275	0.84[ASN][1000 genomes]
rs36050742	0.87[AMR][1000 genomes]
rs41390947	0.88[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs41395650	0.88[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs58194956	0.91[EUR][1000 genomes]
rs58601435	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6533415	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6849377	0.87[AMR][1000 genomes]
rs7675810	0.88[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs7677934	0.87[AMR][1000 genomes]
rs9999518	0.87[AMR][1000 genomes]

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	nsv461613	chr4:109922064-110593460	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv595129	chr4:109922064-110593460	Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers 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 miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110047000-110085400	Weak transcription	Hela-S3	cervix
2	chr4:110082400-110087200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr4:110083000-110085600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr4:110083400-110085600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr4:110083800-110085800	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr4:110083800-110085800	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr4:110084200-110085000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr4:110084200-110085400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr4:110084200-110085800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr4:110084200-110085800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr4:110084400-110085400	Enhancers	H9 Cell Line	embryonic stem cell
12	chr4:110084400-110085800	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr4:110084400-110085800	Enhancers	HUES48 Cell Line	embryonic stem cell
14	chr4:110084600-110085600	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr4:110084800-110085200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
16	chr4:110084800-110085600	Enhancers	iPS-15b Cell Line	embryonic stem cell
17	chr4:110084800-110085800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr4:110084800-110085800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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