Variant report

Variant	rs1434545
Chromosome Location	chr4:95969759-95969760
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10017056	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10018945	0.84[CEU][hapmap];0.91[MEX][hapmap];0.87[TSI][hapmap];0.81[EUR][1000 genomes]
rs12644723	0.82[EUR][1000 genomes]
rs13103406	0.95[CEU][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13103870	0.94[CEU][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13111378	0.95[CEU][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13117435	0.80[AMR][1000 genomes]
rs13118960	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13127255	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13128282	0.95[CEU][hapmap];0.94[EUR][1000 genomes]
rs13131684	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13139927	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13146146	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13152791	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1347345	0.80[CEU][hapmap];0.91[MEX][hapmap];0.87[TSI][hapmap];0.81[EUR][1000 genomes]
rs17344975	0.96[CEU][hapmap];0.84[CHD][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17403454	0.96[CEU][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap];0.90[EUR][1000 genomes]
rs17404327	0.96[CEU][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17411701	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17411860	1.00[CEU][hapmap];0.84[CHD][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1836264	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28601734	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34484245	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34745188	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34755714	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34800104	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35653658	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35697886	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35888953	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35966830	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3796439	0.83[MEX][hapmap];0.80[TSI][hapmap]
rs3821964	0.87[MEX][hapmap];0.80[TSI][hapmap]
rs4145994	0.95[CEU][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4699831	1.00[CEU][hapmap];0.86[CHB][hapmap];0.84[CHD][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62316229	0.90[EUR][1000 genomes]
rs62316236	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62316238	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62316240	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62316255	0.84[EUR][1000 genomes]
rs6532526	0.82[EUR][1000 genomes]
rs6532527	0.80[CEU][hapmap];0.91[MEX][hapmap];0.90[TSI][hapmap];0.82[EUR][1000 genomes]
rs6815593	0.96[CEU][hapmap];0.84[CHD][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6815752	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6821072	0.85[CHB][hapmap]
rs6823424	0.85[EUR][1000 genomes]
rs6829326	0.90[EUR][1000 genomes]
rs6836821	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6838546	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6854585	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6855319	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7377902	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7669755	0.85[CHB][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7681920	0.80[CEU][hapmap];0.91[MEX][hapmap];0.87[TSI][hapmap];0.81[EUR][1000 genomes]
rs7682651	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7690400	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7694043	1.00[CEU][hapmap];0.84[CHD][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932216	chr4:95501261-96109807	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1003860	chr4:95507683-96120619	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv869528	chr4:95537649-96368018	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv492312	chr4:95823124-96128327	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	nsv879622	chr4:95917980-95984379	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv830011	chr4:95947560-96103934	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active 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	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:95957000-95972400	Weak transcription	Psoas Muscle	Psoas
2	chr4:95966800-95971400	Weak transcription	Fetal Brain Female	brain
3	chr4:95966800-95972800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr4:95967000-95970200	Weak transcription	Aorta	Aorta
5	chr4:95967000-95971000	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr4:95967000-95972200	Weak transcription	Brain Cingulate Gyrus	brain
7	chr4:95967000-95972400	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr4:95967000-95972400	Weak transcription	Brain Germinal Matrix	brain
9	chr4:95967000-95972400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr4:95967000-95972400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr4:95967000-95972400	Weak transcription	NH-A	brain
12	chr4:95967000-95972600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr4:95967000-95972800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr4:95967200-95971400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr4:95967200-95982800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr4:95967400-95972400	Weak transcription	Ovary	ovary
17	chr4:95967600-95971400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr4:95967800-95970800	Weak transcription	Fetal Kidney	kidney
19	chr4:95967800-95971600	Enhancers	A549	lung
20	chr4:95967800-95972200	Weak transcription	Brain Anterior Caudate	brain
21	chr4:95967800-95972400	Weak transcription	Brain Hippocampus Middle	brain
22	chr4:95969200-95972200	Enhancers	Cortex derived primary cultured neurospheres	brain
23	chr4:95969400-95969800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr4:95969600-95972200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr4:95969600-95972600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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