Variant report

Variant	rs1887107
Chromosome Location	chr13:39663641-39663642
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-NHLRC3-1	chr13:39662919-39665864	XLOC_010353

Extended variants
information (count: 28 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11840611	0.82[CEU][hapmap];0.90[CHB][hapmap];0.88[JPT][hapmap]
rs12430086	0.89[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1326404	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs1926474	0.82[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap]
rs1926475	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2324160	0.98[ASN][1000 genomes]
rs3751376	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs3865000	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs6563660	0.90[CHB][hapmap];0.94[JPT][hapmap]
rs6563661	0.82[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap]
rs6563662	0.82[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap]
rs67948555	0.80[ASN][1000 genomes]
rs7324256	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs7985641	0.82[CEU][hapmap];0.90[CHB][hapmap];0.81[GIH][hapmap];0.94[JPT][hapmap];0.93[MEX][hapmap];0.88[TSI][hapmap]
rs7995325	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9315649	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9566395	0.98[ASN][1000 genomes]
rs9576672	0.80[ASN][1000 genomes]
rs9576680	0.85[ASN][1000 genomes]
rs9576710	0.82[YRI][hapmap]
rs9576711	0.82[YRI][hapmap]
rs9576720	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9576723	0.98[ASN][1000 genomes]
rs9594319	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9603500	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9888511	0.95[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]

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	esv2754118	chr13:39347702-40222644	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1035255	chr13:39618302-39715336	Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:39660600-39665800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr13:39662800-39664200	Weak transcription	Brain Hippocampus Middle	brain

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