Variant report

Variant	rs9474649
Chromosome Location	chr6:53621896-53621897
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:53617028..53618727-chr6:53619608..53622037,2	K562	blood:

Extended variants
information (count: 43 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10456672	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10755766	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1076701	0.86[MEX][hapmap]
rs1076702	0.81[CHB][hapmap]
rs10948775	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11751003	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11758147	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13216331	1.00[CEU][hapmap];0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4314499	0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4345397	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4373352	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4400206	1.00[CEU][hapmap];0.84[LWK][hapmap];0.86[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4404762	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4441952	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4457161	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4516937	1.00[CEU][hapmap];0.86[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4563705	1.00[CEU][hapmap];0.83[JPT][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4610551	0.81[AMR][1000 genomes]
rs4712043	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4712044	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4715418	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6903399	0.81[AMR][1000 genomes]
rs6908232	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6921605	1.00[CEU][hapmap];0.90[CHB][hapmap];0.87[CHD][hapmap];0.92[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6925356	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6934324	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7749273	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7756512	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7763482	1.00[CEU][hapmap];0.84[LWK][hapmap];0.86[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7776124	1.00[CEU][hapmap];0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9382232	0.90[AMR][1000 genomes];0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9382233	0.90[AMR][1000 genomes];0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9382235	0.81[AMR][1000 genomes]
rs9382243	0.82[CHB][hapmap];0.84[GIH][hapmap];0.81[JPT][hapmap];0.86[MEX][hapmap];0.83[TSI][hapmap]
rs9382254	0.81[CHB][hapmap];0.84[GIH][hapmap];0.86[MEX][hapmap]
rs9395876	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9395878	0.83[TSI][hapmap]
rs9474639	0.90[CEU][hapmap];0.94[EUR][1000 genomes]
rs9474640	0.95[CEU][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9474641	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9474646	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.97[EUR][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	nsv1034955	chr6:53447607-53931055	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv1021506	chr6:53600338-53770482	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9474649	TINAG	cis	cerebellum	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:53601600-53638000	Weak transcription	Primary hematopoietic stem cells	blood
2	chr6:53618200-53630200	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr6:53618800-53635800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr6:53619400-53633400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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