Variant report

Variant	rs740182
Chromosome Location	chr7:26576535-26576536
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	chr7:26561471..26564248-chr7:26575728..26578008,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KIAA0087-3	chr7:26572740-26576639	NR_022006

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10215963	0.82[ASN][1000 genomes]
rs10277111	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10278711	0.84[ASN][1000 genomes]
rs11768540	0.85[ASN][1000 genomes]
rs11982919	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13232269	0.83[ASN][1000 genomes]
rs1990100	0.81[ASN][1000 genomes]
rs1990101	0.84[ASN][1000 genomes]
rs2158711	0.81[CEU][hapmap];0.90[JPT][hapmap];0.82[YRI][hapmap];0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3801874	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6942911	0.83[ASN][1000 genomes]
rs6943003	0.84[ASN][1000 genomes]
rs6943839	0.82[ASN][1000 genomes]
rs6953147	0.84[ASN][1000 genomes]
rs6979763	0.83[ASN][1000 genomes]
rs6980196	0.83[ASN][1000 genomes]
rs6980328	0.83[ASN][1000 genomes]
rs730954	0.81[CHB][hapmap];0.81[CHD][hapmap]
rs730955	1.00[CEU][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.93[TSI][hapmap];0.82[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7779755	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs995992	0.81[CEU][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];0.90[JPT][hapmap];0.86[TSI][hapmap];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs995993	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs995994	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs996550	0.83[ASN][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	nsv1029596	chr7:26302739-26737913	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
2	nsv538804	chr7:26302739-26737913	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv1025538	chr7:26482342-27376045	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases
4	nsv538805	chr7:26482342-27376045	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs740182	HOXA10	cis	lymphoblastoid	seeQTL

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:26571000-26578000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr7:26574200-26577600	Enhancers	Fetal Thymus	thymus
3	chr7:26574200-26579000	Enhancers	Primary hematopoietic stem cells	blood
4	chr7:26574200-26579400	Enhancers	Thymus	Thymus
5	chr7:26575400-26576800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr7:26576400-26577000	Transcr. at gene 5' and 3'	Primary hematopoietic stem cells short term culture	blood

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