Variant report

Variant	rs12537142
Chromosome Location	chr7:136583569-136583570
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PTN-2	chr7:136583520-136584564	ENSG00000234352.2

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs10243944	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10447876	0.80[ASN][1000 genomes]
rs10447877	0.82[ASN][1000 genomes]
rs10447879	0.82[ASN][1000 genomes]
rs10488598	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10954567	1.00[CEU][hapmap];0.86[JPT][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11971334	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11976272	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11981061	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs11982108	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12532092	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12532094	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12533847	0.82[ASN][1000 genomes]
rs12535371	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12536267	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12536293	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12536315	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12536341	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12537962	1.00[CEU][hapmap];0.89[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12539659	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12539738	1.00[CEU][hapmap];0.89[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12540313	1.00[CEU][hapmap];0.89[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12707333	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12707334	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13224113	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13235468	0.87[CEU][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13244595	1.00[CEU][hapmap];0.89[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13246516	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1364404	1.00[CEU][hapmap];0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1364405	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1424387	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1469179	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17411478	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17411561	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17412549	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17412764	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17412792	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17495182	1.00[CEU][hapmap];0.89[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17495548	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17495783	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17496259	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17496363	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17496543	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17496575	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17496844	0.84[CEU][hapmap];0.89[JPT][hapmap];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17496997	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17497143	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17497261	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17497337	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17497363	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs2278071	0.95[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2350781	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs324644	1.00[CHB][hapmap]
rs34777519	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35458626	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35850868	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4629799	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs55816133	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55828513	0.82[ASN][1000 genomes]
rs55895689	0.82[ASN][1000 genomes]
rs62485228	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62485229	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62485234	0.82[ASN][1000 genomes]
rs62485236	0.82[ASN][1000 genomes]
rs62485237	0.82[ASN][1000 genomes]
rs62485238	0.82[ASN][1000 genomes]
rs62485239	0.82[ASN][1000 genomes]
rs62485240	0.82[ASN][1000 genomes]
rs62485241	0.82[ASN][1000 genomes]
rs62485242	0.82[ASN][1000 genomes]
rs62485243	0.80[ASN][1000 genomes]
rs62485244	0.82[ASN][1000 genomes]
rs62485245	0.82[ASN][1000 genomes]
rs62485246	0.82[ASN][1000 genomes]
rs62485247	0.82[ASN][1000 genomes]
rs62485248	0.82[ASN][1000 genomes]
rs62485254	0.82[ASN][1000 genomes]
rs6947206	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs73158708	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73158738	0.82[ASN][1000 genomes]
rs7457321	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7458912	1.00[CEU][hapmap];0.89[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7790583	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7799307	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7800170	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7810473	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7811061	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[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	nsv1029192	chr7:136433278-137147566	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv831147	chr7:136583444-136755741	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:136558000-136609200	Weak transcription	Left Ventricle	heart
2	chr7:136578600-136584400	Weak transcription	Colon Smooth Muscle	Colon
3	chr7:136578800-136587200	Weak transcription	Stomach Smooth Muscle	stomach
4	chr7:136580600-136585400	Enhancers	Fetal Heart	heart
5	chr7:136581600-136584800	Weak transcription	Rectal Smooth Muscle	rectum
6	chr7:136582400-136586400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr7:136583400-136584800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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