Variant report

Variant	rs6460696
Chromosome Location	chr7:71404008-71404009
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10215280	0.85[CHB][hapmap];0.89[CHD][hapmap];0.84[JPT][hapmap];0.82[ASN][1000 genomes]
rs10231417	0.84[ASN][1000 genomes]
rs10252758	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10273440	0.85[CHB][hapmap];0.92[CHD][hapmap];0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs10273829	0.83[ASN][1000 genomes]
rs10276992	0.83[ASN][1000 genomes]
rs10277368	0.83[ASN][1000 genomes]
rs10279318	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1076303	0.89[CHB][hapmap];0.94[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12533995	0.80[ASN][1000 genomes]
rs1319249	0.84[ASN][1000 genomes]
rs16869597	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs2867561	0.84[ASN][1000 genomes]
rs6460697	0.85[CEU][hapmap]
rs6460698	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6460701	0.85[CHB][hapmap];0.87[CHD][hapmap];0.84[JPT][hapmap]
rs6944338	0.85[CHB][hapmap];0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs6951255	0.89[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6971765	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7803466	0.89[CHB][hapmap];0.94[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7808924	0.85[CHB][hapmap];0.92[CHD][hapmap];0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs974134	0.85[CHB][hapmap];0.89[CHD][hapmap];0.84[JPT][hapmap];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026896	chr7:71003462-71721516	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1027496	chr7:71162362-71575116	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv916220	chr7:71200006-71708048	Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv531372	chr7:71300090-71909517	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
5	nsv1017367	chr7:71339782-71476575	ZNF genes & repeats Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	esv2761106	chr7:71400823-71414285	Enhancers Weak transcription Strong transcription ZNF genes & repeats	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6460696	SPDYE7P	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:71399800-71407400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr7:71399800-71407400	Weak transcription	Fetal Thymus	thymus
3	chr7:71400400-71424400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr7:71401200-71431000	Weak transcription	Primary hematopoietic stem cells	blood
5	chr7:71401400-71407200	Weak transcription	Thymus	Thymus
6	chr7:71401800-71407200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr7:71403400-71431000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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