Variant report

Variant	rs10434219
Chromosome Location	chr4:62598689-62598690
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10006906	0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10021572	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10022833	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10032113	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12504607	0.82[JPT][hapmap]
rs12509549	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12649170	1.00[CEU][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4241639	0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4283700	1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];0.95[TSI][hapmap];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4312783	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4585337	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.94[MEX][hapmap];0.97[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4860428	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6551637	0.82[JPT][hapmap]
rs6551640	0.82[JPT][hapmap]
rs6551645	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap]
rs6840548	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6842211	0.84[AFR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6851424	0.82[JPT][hapmap]
rs7670950	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7678046	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.94[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7684100	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9312082	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9997427	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.95[TSI][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9998476	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9998713	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.98[TSI][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][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	nsv461377	chr4:62368762-62883431	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv594328	chr4:62368762-62883431	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:62578800-62602000	Weak transcription	Aorta	Aorta
2	chr4:62579400-62606800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr4:62589800-62599000	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr4:62590000-62601000	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr4:62590200-62599400	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr4:62590200-62600400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr4:62590400-62600400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr4:62590800-62606400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr4:62593600-62606000	Weak transcription	Brain Anterior Caudate	brain
10	chr4:62594600-62609400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr4:62596400-62606400	Weak transcription	Fetal Kidney	kidney
12	chr4:62596800-62598800	Weak transcription	Brain Cingulate Gyrus	brain
13	chr4:62597000-62606400	Weak transcription	Brain Substantia Nigra	brain
14	chr4:62597200-62599000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr4:62597200-62606000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr4:62597200-62606400	Weak transcription	Fetal Heart	heart
17	chr4:62597200-62609400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr4:62597600-62600400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr4:62597600-62602800	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr4:62597800-62600400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr4:62597800-62606200	Weak transcription	Brain Angular Gyrus	brain
22	chr4:62598400-62598800	Weak transcription	Fetal Brain Male	brain
23	chr4:62598400-62600400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr4:62598400-62600400	Strong transcription	Fetal Muscle Leg	muscle
25	chr4:62598600-62598800	ZNF genes & repeats	Brain Germinal Matrix	brain
26	chr4:62598600-62599000	ZNF genes & repeats	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr4:62598600-62599000	ZNF genes & repeats	Fetal Lung	lung
28	chr4:62598600-62599200	Strong transcription	Brain Inferior Temporal Lobe	brain
29	chr4:62598600-62599400	Strong transcription	Fetal Muscle Trunk	muscle
30	chr4:62598600-62601200	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived

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