Variant report

Variant	rs3801377
Chromosome Location	chr7:121524500-121524501
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs12667535	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12669706	1.00[CEU][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12672519	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1916885	1.00[CEU][hapmap];0.94[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2024251	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2191783	0.88[CEU][hapmap];0.94[JPT][hapmap];0.96[LWK][hapmap];0.88[MKK][hapmap];0.90[TSI][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3757544	0.81[MKK][hapmap]
rs3757551	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3801373	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3801374	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3801380	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap];0.93[ASN][1000 genomes]
rs56265902	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6946211	0.89[MKK][hapmap]
rs6965735	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6966138	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6971645	1.00[CEU][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73229136	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs740965	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap];0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7797043	0.92[ASN][1000 genomes]
rs9641678	1.00[CEU][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[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	nsv429808	chr7:121384049-121600049	Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv1802911	chr7:121489994-121524500	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:121515600-121543600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr7:121516200-121524600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr7:121521400-121525400	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr7:121521600-121524600	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr7:121521600-121529800	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr7:121522000-121530400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr7:121522400-121527600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr7:121522400-121528400	Enhancers	Fetal Brain Male	brain
9	chr7:121522600-121526800	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr7:121522600-121550000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr7:121523200-121525000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr7:121523200-121539800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr7:121523200-121552600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr7:121523600-121525000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr7:121523600-121529800	Weak transcription	NHEK	skin
16	chr7:121523800-121525200	Enhancers	iPS-18 Cell Line	embryonic stem cell
17	chr7:121523800-121527200	Enhancers	HUES64 Cell Line	embryonic stem cell
18	chr7:121524000-121524600	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr7:121524400-121524600	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
20	chr7:121524400-121524800	Flanking Active TSS	Fetal Brain Female	brain
21	chr7:121524400-121525600	Genic enhancers	HUES6 Cell Line	embryonic stem cell
22	chr7:121524400-121526000	Enhancers	iPS-15b Cell Line	embryonic stem cell
23	chr7:121524400-121526200	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain

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