Variant report

Variant	rs779473
Chromosome Location	chr6:69924282-69924283
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1083694	0.94[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes]
rs2050918	0.94[CEU][hapmap];0.96[EUR][1000 genomes]
rs314198	1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs314214	0.94[CEU][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs701653	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs701654	0.94[CEU][hapmap];0.97[EUR][1000 genomes]
rs728299	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs779456	1.00[CEU][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs779464	0.83[ASW][hapmap];1.00[CEU][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.90[TSI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs779466	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs779468	0.97[EUR][1000 genomes]
rs779471	0.97[EUR][1000 genomes]
rs779481	0.84[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs779489	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9454720	1.00[CEU][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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	nsv886138	chr6:69865641-69924282	Enhancers Weak transcription Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
3	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
rs779473	NT5E	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:69913600-69924400	Weak transcription	Fetal Lung	lung
2	chr6:69923200-69925800	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr6:69923600-69926200	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr6:69923800-69926400	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr6:69923800-69930200	Enhancers	HUES6 Cell Line	embryonic stem cell
6	chr6:69924000-69924400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr6:69924000-69924400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr6:69924000-69924400	Enhancers	Placenta Amnion	Placenta Amnion
9	chr6:69924000-69925000	Enhancers	H9 Cell Line	embryonic stem cell
10	chr6:69924000-69926200	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr6:69924000-69930200	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr6:69924000-69931400	Enhancers	ES-I3 Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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