Variant report

Variant	rs9474998
Chromosome Location	chr6:54642372-54642373
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	chr6:54640508..54643660-chr6:54711207..54713141,3	MCF-7	breast:
2	chr6:54641381..54644333-chr6:54709873..54712755,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168143	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10484987	1.00[CEU][hapmap]
rs10484990	1.00[CEU][hapmap]
rs10484992	1.00[CEU][hapmap]
rs12194292	1.00[CEU][hapmap]
rs12196439	1.00[CEU][hapmap];0.93[GIH][hapmap];0.92[TSI][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12205849	1.00[CEU][hapmap]
rs12207828	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12213260	1.00[CEU][hapmap]
rs12216154	0.86[GIH][hapmap]
rs13190743	1.00[ASN][1000 genomes]
rs13192654	1.00[ASN][1000 genomes]
rs13212537	1.00[ASN][1000 genomes]
rs13218354	1.00[ASN][1000 genomes]
rs13220607	1.00[ASN][1000 genomes]
rs1395638	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1395639	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17682062	1.00[ASN][1000 genomes]
rs239782	1.00[ASN][1000 genomes]
rs239784	1.00[ASN][1000 genomes]
rs239785	1.00[ASN][1000 genomes]
rs34317450	1.00[ASN][1000 genomes]
rs34784567	1.00[ASN][1000 genomes]
rs35242257	1.00[ASN][1000 genomes]
rs35332422	1.00[ASN][1000 genomes]
rs35355591	1.00[ASN][1000 genomes]
rs35601036	1.00[ASN][1000 genomes]
rs35776136	1.00[ASN][1000 genomes]
rs6929628	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6930882	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6936719	1.00[ASN][1000 genomes]
rs71560861	1.00[ASN][1000 genomes]
rs71560863	1.00[ASN][1000 genomes]
rs71560865	1.00[ASN][1000 genomes]
rs71560870	1.00[ASN][1000 genomes]
rs71560871	1.00[ASN][1000 genomes]
rs71560872	1.00[ASN][1000 genomes]
rs7745648	0.86[GIH][hapmap]
rs7773204	0.88[CEU][hapmap]
rs925056	1.00[CEU][hapmap]
rs9464152	1.00[ASN][1000 genomes]
rs9474993	1.00[CEU][hapmap];0.93[GIH][hapmap];0.86[TSI][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9474994	1.00[CEU][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9474999	1.00[CEU][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9475000	1.00[CEU][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9475047	1.00[ASN][1000 genomes]
rs9475049	1.00[ASN][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	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv885902	chr6:54588069-54656673	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54641800-54642400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr6:54641800-54642600	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr6:54642000-54642400	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
4	chr6:54642000-54642400	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr6:54642000-54642400	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr6:54642000-54642600	Enhancers	iPS-15b Cell Line	embryonic stem cell
7	chr6:54642200-54642600	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell

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