Variant report

Variant	rs12520360
Chromosome Location	chr5:60999360-60999361
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C5orf43-7	chr5:60999341-60999461	ucscGeneNc_uc003jsu_1

Extended variants
information (count: 48 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1123763	0.91[EUR][1000 genomes]
rs1123764	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11738335	0.82[JPT][hapmap]
rs11738462	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11738494	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11740126	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11743702	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.93[TSI][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11746049	0.95[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.96[TSI][hapmap];0.95[EUR][1000 genomes]
rs11747208	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes]
rs11747263	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11748959	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11750531	0.82[JPT][hapmap]
rs11750644	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs12514378	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12517109	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12519709	0.91[EUR][1000 genomes]
rs12519720	0.91[EUR][1000 genomes]
rs12521924	0.91[EUR][1000 genomes]
rs12522405	0.91[EUR][1000 genomes]
rs13154578	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13156487	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13156637	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13159935	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13160822	0.91[EUR][1000 genomes]
rs13163936	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13168562	0.95[EUR][1000 genomes]
rs13170002	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13175459	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13186555	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1501845	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.96[TSI][hapmap];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16893320	0.83[CEU][hapmap];0.82[JPT][hapmap]
rs16893322	0.82[JPT][hapmap]
rs16893553	0.95[EUR][1000 genomes]
rs17429209	1.00[CEU][hapmap];0.90[CHB][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2950221	0.92[YRI][hapmap];0.82[AFR][1000 genomes]
rs4699979	1.00[CEU][hapmap];0.90[CHB][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4699980	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4700424	1.00[JPT][hapmap]
rs4700429	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4700430	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4700432	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4700433	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6870236	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6872706	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6896690	0.95[EUR][1000 genomes]
rs7704929	0.95[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs7714841	0.82[JPT][hapmap]
rs7722134	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12520360	FLJ37543	cis	cerebellum	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:60994400-61002400	Weak transcription	Fetal Muscle Leg	muscle
2	chr5:60994800-60999400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr5:60994800-61002600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr5:60997800-61001800	Weak transcription	Brain Cingulate Gyrus	brain
5	chr5:60997800-61015200	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr5:60998000-61003600	Weak transcription	Brain Hippocampus Middle	brain
7	chr5:60998200-61002600	Weak transcription	Brain Anterior Caudate	brain
8	chr5:60998400-61000000	Enhancers	GM12878-XiMat	blood
9	chr5:60998400-61002600	Weak transcription	Brain Substantia Nigra	brain
10	chr5:60998800-60999800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr5:60998800-61002600	Weak transcription	Adipose Nuclei	Adipose
12	chr5:60999000-61001400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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