Variant report

Variant	rs6907421
Chromosome Location	chr6:133152847-133152848
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:133140438..133142973-chr6:133152186..133155729,4	K562	blood:
2	chr6:133133823..133137064-chr6:133152471..133155832,4	K562	blood:
3	chr6:133146833..133149424-chr6:133152798..133154698,2	K562	blood:
4	chr6:133151975..133153613-chr6:133282539..133284979,2	K562	blood:
5	chr6:133151897..133155334-chr6:133156928..133160559,4	K562	blood:

Variant related genes	Relation type
ENSG00000206754	Chromatin interaction
ENSG00000112306	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs1001018	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1009687	0.95[CEU][hapmap];0.83[CHB][hapmap];0.82[JPT][hapmap];0.83[EUR][1000 genomes]
rs1124450	0.88[ASW][hapmap];0.84[CHD][hapmap];0.89[LWK][hapmap];0.89[YRI][hapmap]
rs12192765	0.90[CEU][hapmap];0.94[CHB][hapmap];0.88[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12193918	0.92[YRI][hapmap]
rs12200907	0.88[ASW][hapmap];0.86[CHD][hapmap];0.95[LWK][hapmap];0.83[MEX][hapmap];0.89[YRI][hapmap]
rs12202302	0.91[CHD][hapmap]
rs12206120	0.85[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs1359142	0.88[ASW][hapmap];0.86[CHD][hapmap];0.85[LWK][hapmap];0.83[MEX][hapmap];0.86[YRI][hapmap]
rs1408062	0.88[ASW][hapmap];0.86[CHD][hapmap];0.89[LWK][hapmap];0.85[YRI][hapmap]
rs1408065	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs1544060	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs271179	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs4895945	0.80[ASN][1000 genomes]
rs4897617	0.86[CHD][hapmap]
rs6569855	1.00[CEU][hapmap];0.94[CHB][hapmap];0.88[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6921262	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6926466	0.91[CHD][hapmap]
rs6927761	0.94[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs755894	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs755895	0.95[AFR][1000 genomes]
rs761125	0.82[CHD][hapmap]
rs7740291	0.80[CEU][hapmap];0.83[CHB][hapmap];0.82[JPT][hapmap]
rs7756588	0.86[CHD][hapmap];0.83[MEX][hapmap]
rs7764152	0.95[AFR][1000 genomes]
rs7766944	0.81[AFR][1000 genomes]
rs7768053	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];0.94[JPT][hapmap];0.92[MEX][hapmap];0.93[TSI][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7768470	0.89[YRI][hapmap]
rs7768634	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7774585	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9321377	0.88[AFR][1000 genomes]
rs9321378	0.84[ASN][1000 genomes]
rs9321379	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9373030	0.94[ASW][hapmap];0.86[CHD][hapmap];0.97[LWK][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes]
rs9373033	0.80[CEU][hapmap];0.83[CHB][hapmap];0.82[JPT][hapmap]
rs9375921	0.80[ASN][1000 genomes]
rs9375927	0.80[CEU][hapmap];0.83[CHB][hapmap];0.91[CHD][hapmap];0.82[JPT][hapmap];0.84[MEX][hapmap]
rs9385624	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs9389035	0.80[ASN][1000 genomes]
rs9402461	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];0.94[JPT][hapmap];0.92[MEX][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9493450	0.80[CHD][hapmap]
rs9493459	0.80[CEU][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];0.82[JPT][hapmap];0.87[MEX][hapmap];0.87[ASN][1000 genomes]
rs9493464	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9493468	0.84[EUR][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	nsv532069	chr6:132776411-133462292	Active TSS Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv1015742	chr6:132933666-133285852	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	71 gene(s)	inside rSNPs	diseases
3	nsv886676	chr6:133111706-133168582	Flanking Active TSS Genic enhancers Enhancers Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
4	esv1806734	chr6:133125643-133168582	Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	63 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs6907421	ACA33	cis	multi-tissue	Pritchard
rs6907421	TAAR9	cis	parietal	SCAN
rs6907421	SNORA33	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133140800-133153800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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