Variant report

Variant	rs4434173
Chromosome Location	chr3:51129594-51129595
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11130280	0.89[ASN][1000 genomes]
rs13080170	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28708817	0.86[ASN][1000 genomes]
rs28810453	0.84[ASN][1000 genomes]
rs2883809	0.86[ASN][1000 genomes]
rs35356497	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4356848	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4364203	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4367100	0.86[ASN][1000 genomes]
rs4443210	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4475072	0.91[ASN][1000 genomes]
rs4560329	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4572801	0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4639007	0.81[EUR][1000 genomes]
rs4927969	0.89[ASN][1000 genomes]
rs4927970	0.87[ASN][1000 genomes]
rs4927973	0.86[ASN][1000 genomes]
rs6445501	0.83[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6445549	0.86[ASN][1000 genomes]
rs6445843	0.81[EUR][1000 genomes]
rs6772197	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6784455	0.87[ASN][1000 genomes]
rs6787805	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6795272	0.80[EUR][1000 genomes]
rs6796642	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6799722	0.86[ASN][1000 genomes]
rs6800279	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7618173	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9815781	0.87[ASN][1000 genomes]
rs9837334	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9839484	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9844581	0.87[ASN][1000 genomes]
rs9847479	0.89[ASN][1000 genomes]
rs9865532	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491647	chr3:50856276-51245158	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1005858	chr3:51090373-51444027	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv536569	chr3:51090373-51444027	Flanking Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
4	esv3447639	chr3:51129523-51158383	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:51120600-51134400	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr3:51120800-51143000	Weak transcription	Brain Angular Gyrus	brain
3	chr3:51121000-51143000	Weak transcription	Brain Hippocampus Middle	brain
4	chr3:51121000-51145200	Weak transcription	Fetal Brain Male	brain
5	chr3:51122000-51143000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr3:51122800-51143000	Weak transcription	Fetal Brain Female	brain
7	chr3:51123000-51132600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr3:51124200-51143000	Weak transcription	Brain Germinal Matrix	brain
9	chr3:51125400-51143000	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr3:51125400-51143200	Weak transcription	Brain Substantia Nigra	brain
11	chr3:51125800-51134200	Weak transcription	Brain Anterior Caudate	brain
12	chr3:51128200-51132000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr3:51128200-51143800	Weak transcription	Brain Cingulate Gyrus	brain
14	chr3:51128400-51129600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr3:51128400-51142800	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr3:51129200-51129800	Enhancers	H1 Cell Line	embryonic stem cell
17	chr3:51129200-51129800	Enhancers	HUES6 Cell Line	embryonic stem cell
18	chr3:51129200-51129800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr3:51129200-51129800	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr3:51129400-51129600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr3:51129400-51129800	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr3:51129400-51129800	Enhancers	iPS-15b Cell Line	embryonic stem cell

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