Variant report

Variant	rs9461945
Chromosome Location	chr6:33985312-33985313
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:33965808..33968409-chr6:33983090..33985513,2	MCF-7	breast:
2	chr6:33984912..33989076-chr6:33989536..33992823,4	K562	blood:
3	chr6:33984015..33986037-chr6:33988721..33991163,3	MCF-7	breast:
4	chr6:33981148..33985345-chr6:33985461..33987631,3	K562	blood:
5	chr6:33985161..33986783-chr6:33990060..33992314,2	K562	blood:
6	chr6:33960488..33962922-chr6:33984641..33987611,2	K562	blood:

Variant related genes	Relation type
ENSG00000221697	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs2306926	0.80[ASN][1000 genomes]
rs3778043	0.80[ASN][1000 genomes]
rs3778044	0.80[ASN][1000 genomes]
rs58101301	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs59998731	0.84[AFR][1000 genomes]
rs61423062	0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs61457033	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6457754	0.96[ASN][1000 genomes]
rs6457755	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs6457756	0.96[ASN][1000 genomes]
rs6901878	0.80[ASN][1000 genomes]
rs73744976	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs7745888	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7762948	0.96[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7772436	0.96[ASN][1000 genomes]
rs9296110	0.91[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9461939	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs9461940	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs9461941	0.91[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9461942	0.96[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9461943	0.89[ASN][1000 genomes]
rs9461944	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs9461946	0.84[AFR][1000 genomes]
rs9469671	0.96[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9469672	0.96[ASN][1000 genomes]
rs9469673	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9469675	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9469677	0.96[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9469678	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9469679	0.89[ASN][1000 genomes]
rs9469680	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs9469681	0.96[ASN][1000 genomes]
rs9469682	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916210	chr6:33804111-34144062	Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	32 gene(s)	inside rSNPs	diseases
2	nsv462900	chr6:33932442-34195011	Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
3	nsv602843	chr6:33932442-34195011	Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
4	nsv885777	chr6:33942228-33997375	Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
5	nsv885778	chr6:33942228-34007054	Bivalent Enhancer Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
6	nsv462901	chr6:33953646-34050917	ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
7	nsv602861	chr6:33953646-34050917	Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33984000-33986200	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr6:33984000-33993600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:33984000-34010200	Weak transcription	Brain Anterior Caudate	brain
4	chr6:33984200-33986000	Weak transcription	Brain Germinal Matrix	brain
5	chr6:33984200-33986400	Weak transcription	Fetal Brain Female	brain
6	chr6:33984400-33986200	Weak transcription	Fetal Brain Male	brain
7	chr6:33984400-33989200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr6:33984400-34023000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr6:33984800-33986200	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr6:33985200-34002200	Weak transcription	HUES48 Cell Line	embryonic stem cell

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