Variant report

Variant	rs9315532
Chromosome Location	chr13:38568693-38568694
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11619577	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1337647	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1572503	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17277817	0.87[EUR][1000 genomes]
rs2225872	0.81[EUR][1000 genomes]
rs2245073	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2249628	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2255148	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2256009	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2256119	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2265458	0.82[EUR][1000 genomes]
rs2485283	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2485290	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2485492	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2485502	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2785959	0.81[EUR][1000 genomes]
rs7317173	0.88[EUR][1000 genomes]
rs9315533	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9315542	0.87[EUR][1000 genomes]
rs9532136	0.85[EUR][1000 genomes]
rs9532137	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9532142	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9532144	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9532149	0.87[EUR][1000 genomes]
rs9532150	0.88[EUR][1000 genomes]
rs9548129	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9548136	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9548159	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9548217	1.00[CHB][hapmap]
rs9603311	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9603314	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv915901	chr13:38199035-39032633	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv899996	chr13:38459224-38577056	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv899998	chr13:38480878-38582178	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv869125	chr13:38550449-39132813	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv949406	chr13:38561474-39033484	Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9315532	LINC00571	cis	Thyroid	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:38568400-38569000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr13:38568400-38570000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr13:38568400-38570000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr13:38568600-38569200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr13:38568600-38569800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr13:38568600-38569800	Enhancers	Brain Germinal Matrix	brain

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