Variant report

Variant	rs297324
Chromosome Location	chr11:16389284-16389285
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:16389241..16392002-chr11:16405954..16407703,2	K562	blood:
2	chr11:16383712..16391203-chr11:16391970..16396695,10	K562	blood:
3	chr11:16389058..16392285-chr11:16392287..16396695,4	K562	blood:
4	chr11:16367238..16369863-chr11:16387081..16389640,2	K562	blood:

Extended variants
information (count: 32 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1018143	0.87[CHB][hapmap];0.91[CHD][hapmap];0.85[JPT][hapmap]
rs10766319	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10766320	1.00[CEU][hapmap]
rs10766321	1.00[CEU][hapmap];0.87[CHB][hapmap];0.85[JPT][hapmap]
rs10766323	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap]
rs10832600	0.87[CHB][hapmap];0.85[JPT][hapmap]
rs10832605	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10832606	1.00[CEU][hapmap];0.87[CHB][hapmap];0.91[CHD][hapmap];0.84[GIH][hapmap];0.85[JPT][hapmap];0.90[MEX][hapmap];0.93[TSI][hapmap]
rs10832608	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap]
rs11023944	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap]
rs11023945	1.00[CEU][hapmap];0.87[CHB][hapmap];0.89[CHD][hapmap];0.84[GIH][hapmap];0.85[JPT][hapmap];0.85[MEX][hapmap];0.93[TSI][hapmap]
rs11820804	1.00[CEU][hapmap];0.87[CHB][hapmap];0.89[CHD][hapmap];0.84[GIH][hapmap];0.85[JPT][hapmap];0.93[TSI][hapmap]
rs12277548	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1503448	0.87[CHB][hapmap];0.85[JPT][hapmap]
rs1503449	0.83[CHB][hapmap];0.91[CHD][hapmap];0.85[JPT][hapmap]
rs1875717	1.00[CEU][hapmap];0.87[CHB][hapmap];0.85[JPT][hapmap]
rs1910407	0.87[CHB][hapmap];0.85[JPT][hapmap]
rs2089050	0.87[CHB][hapmap];0.85[JPT][hapmap]
rs2134609	1.00[CEU][hapmap];0.87[CHB][hapmap];0.85[JPT][hapmap]
rs2174162	0.82[CHB][hapmap];0.91[CHD][hapmap];0.85[JPT][hapmap]
rs2174163	0.87[CHB][hapmap];0.91[CHD][hapmap];0.85[JPT][hapmap]
rs297326	1.00[CEU][hapmap];0.87[CHB][hapmap];0.93[CHD][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs297334	1.00[CEU][hapmap];0.86[CHB][hapmap];0.89[JPT][hapmap]
rs297339	1.00[CEU][hapmap];0.87[CHB][hapmap];0.91[CHD][hapmap];0.84[GIH][hapmap];0.85[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap]
rs626927	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs626929	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7121140	1.00[CEU][hapmap];0.87[CHB][hapmap];0.91[CHD][hapmap];0.84[GIH][hapmap];0.85[JPT][hapmap];0.90[MEX][hapmap];0.93[TSI][hapmap]
rs7929425	1.00[CEU][hapmap];0.87[CHB][hapmap];0.85[JPT][hapmap]
rs7929629	1.00[CEU][hapmap];0.87[CHB][hapmap];0.91[CHD][hapmap];0.84[GIH][hapmap];0.85[JPT][hapmap];0.90[MEX][hapmap];0.93[TSI][hapmap]
rs7951214	1.00[CEU][hapmap];0.87[CHB][hapmap];0.85[JPT][hapmap]

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	nsv529731	chr11:16122782-16468170	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv553566	chr11:16329009-16799044	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs297324	LDHAL6A	cis	cerebellum	SCAN
rs297324	C11orf58	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:16385000-16390200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr11:16387800-16392000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr11:16388000-16391400	Weak transcription	K562	blood
4	chr11:16388200-16397000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr11:16388200-16414200	Weak transcription	Fetal Intestine Small	intestine
6	chr11:16389200-16397800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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