Variant report

Variant	rs779467
Chromosome Location	chr6:69931419-69931420
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11962594	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11965487	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap]
rs1283464	1.00[CEU][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap]
rs1293154	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1297415	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13195278	1.00[CEU][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap]
rs1410699	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1512234	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs16900620	1.00[CEU][hapmap];0.91[GIH][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1706838	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1928060	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs314208	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs314216	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs35829738	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6919623	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs701655	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs701656	0.88[CEU][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71557617	0.92[EUR][1000 genomes]
rs728299	0.91[AFR][1000 genomes]
rs7751967	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs779455	0.89[CEU][hapmap];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs779456	1.00[GIH][hapmap]
rs779459	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs779461	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs779462	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs779464	0.87[YRI][hapmap]
rs779470	0.89[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs779474	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs779483	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs779487	1.00[CEU][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs779492	0.86[EUR][1000 genomes]
rs9346271	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9454720	1.00[GIH][hapmap]

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	nsv886137	chr6:69684850-70095690	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv432919	chr6:69873179-70221322	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs779467	BAI3	cis	cerebellum	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:69926600-69931600	Enhancers	HUES48 Cell Line	embryonic stem cell
2	chr6:69926600-69931600	Enhancers	HUES64 Cell Line	embryonic stem cell
3	chr6:69926600-69931800	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr6:69926800-69931800	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr6:69927800-69933200	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr6:69928400-69933200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr6:69930200-69931600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr6:69930600-69931800	Enhancers	iPS-20b Cell Line	embryonic stem cell
9	chr6:69931000-69933000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr6:69931000-69933200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr6:69931000-69933600	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr6:69931400-69933000	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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