Variant report

Variant	rs9470884
Chromosome Location	chr6:38444763-38444764
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	chr6:38406164..38407857-chr6:38442817..38445173,2	K562	blood:
2	chr6:38443341..38445345-chr6:38445490..38448475,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs12200371	1.00[ASW][hapmap];0.92[CEU][hapmap];0.85[MKK][hapmap];0.83[TSI][hapmap]
rs12662621	0.92[CEU][hapmap];0.95[EUR][1000 genomes]
rs13194990	0.85[CEU][hapmap];0.82[GIH][hapmap];0.82[MEX][hapmap];0.95[TSI][hapmap];0.82[AMR][1000 genomes]
rs13195992	0.82[AMR][1000 genomes]
rs13199002	0.82[AMR][1000 genomes]
rs13199426	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13200372	0.82[GIH][hapmap]
rs13200492	0.82[AMR][1000 genomes]
rs13206272	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13207910	0.85[CEU][hapmap];0.82[AMR][1000 genomes]
rs13215683	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13217060	0.82[AMR][1000 genomes]
rs13218556	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13220921	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34538881	0.82[AMR][1000 genomes]
rs6900510	1.00[CEU][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs71544422	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7770885	0.94[AFR][1000 genomes]
rs7772755	0.85[CEU][hapmap];0.82[AMR][1000 genomes]
rs9462433	0.85[CEU][hapmap];0.82[AMR][1000 genomes]
rs9462434	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9462435	0.92[CEU][hapmap];0.91[EUR][1000 genomes]
rs9470876	0.85[CEU][hapmap];0.82[GIH][hapmap];0.82[MEX][hapmap];0.95[TSI][hapmap];0.82[AMR][1000 genomes]
rs9470878	1.00[CEU][hapmap];0.82[GIH][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes]
rs9470879	0.87[ASW][hapmap];1.00[CEU][hapmap];0.82[GIH][hapmap];0.90[LWK][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9470887	0.91[CEU][hapmap];1.00[GIH][hapmap];0.81[LWK][hapmap];0.82[MEX][hapmap];0.81[MKK][hapmap];0.89[TSI][hapmap];0.91[AMR][1000 genomes];0.92[EUR][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	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv885820	chr6:38166511-38468887	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1022724	chr6:38332368-38454527	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv602958	chr6:38362024-38446634	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1030889	chr6:38374812-38450432	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38396400-38449800	Weak transcription	Primary B cells from cord blood	blood
2	chr6:38412200-38445600	Weak transcription	Primary T cells from cord blood	blood
3	chr6:38437000-38455400	Weak transcription	Gastric	stomach
4	chr6:38440200-38449800	Weak transcription	Primary B cells from peripheral blood	blood
5	chr6:38443200-38445000	Enhancers	Fetal Brain Female	brain
6	chr6:38443200-38445400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr6:38443200-38445600	Enhancers	Brain Germinal Matrix	brain
8	chr6:38443400-38445000	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr6:38443400-38447400	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr6:38443600-38444800	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr6:38443600-38444800	Weak transcription	Fetal Brain Male	brain
12	chr6:38443600-38446000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr6:38443600-38446200	Enhancers	Cortex derived primary cultured neurospheres	brain
14	chr6:38443600-38446600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr6:38443800-38445000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr6:38444000-38444800	Enhancers	iPS-20b Cell Line	embryonic stem cell
17	chr6:38444000-38445200	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr6:38444200-38446800	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr6:38444200-38447000	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr6:38444400-38447200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr6:38444600-38444800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr6:38444600-38447400	Enhancers	HUES6 Cell Line	embryonic stem cell
23	chr6:38444600-38496200	Weak transcription	Primary T cells fromperipheralblood	blood

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