Variant report

Variant	rs4886973
Chromosome Location	chr15:78214312-78214313
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SH2D7-4	chr15:78214120-78214361	ENSG00000261244.1

Extended variants
information (count: 118 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs11072692	0.90[ASN][1000 genomes]
rs11072693	0.90[ASN][1000 genomes]
rs11072697	0.95[ASN][1000 genomes]
rs11072698	0.95[ASN][1000 genomes]
rs11072699	0.95[ASN][1000 genomes]
rs11072700	0.95[ASN][1000 genomes]
rs11072702	0.88[AFR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1108478	0.86[ASN][1000 genomes]
rs1109887	0.86[ASN][1000 genomes]
rs1109888	0.86[ASN][1000 genomes]
rs11630442	0.87[AFR][1000 genomes]
rs11633345	0.83[EUR][1000 genomes]
rs11638419	0.90[ASN][1000 genomes]
rs11638589	0.90[ASN][1000 genomes]
rs11638912	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11857291	0.83[EUR][1000 genomes]
rs11858386	0.86[ASN][1000 genomes]
rs12148340	0.88[AFR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12148737	0.88[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs12899553	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12904130	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12904447	0.86[ASN][1000 genomes]
rs12907649	0.87[ASN][1000 genomes]
rs12907928	0.87[ASN][1000 genomes]
rs12908305	0.90[ASN][1000 genomes]
rs12908616	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12908664	0.86[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs12912453	0.90[ASN][1000 genomes]
rs12913449	0.90[ASN][1000 genomes]
rs12913473	0.90[ASN][1000 genomes]
rs12913714	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12914021	0.88[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs12914978	0.83[ASN][1000 genomes]
rs12915431	0.88[AFR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12915969	0.87[ASN][1000 genomes]
rs12916128	0.82[ASN][1000 genomes]
rs12916759	0.84[ASN][1000 genomes]
rs12917382	0.81[ASN][1000 genomes]
rs1574491	0.86[ASN][1000 genomes]
rs1806454	0.86[ASN][1000 genomes]
rs2004373	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28369222	0.83[ASN][1000 genomes]
rs28523913	0.83[ASN][1000 genomes]
rs28709127	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34028432	0.85[AFR][1000 genomes];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs34811851	0.84[ASN][1000 genomes]
rs35093138	0.83[AFR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3902785	0.86[ASN][1000 genomes]
rs4073671	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4243065	0.86[ASN][1000 genomes]
rs4243067	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4243068	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4325520	0.81[ASN][1000 genomes]
rs4366682	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4435228	0.85[AFR][1000 genomes]
rs4479193	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4493014	0.81[ASN][1000 genomes]
rs4513058	0.84[ASN][1000 genomes]
rs4514642	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4530095	0.91[EUR][1000 genomes]
rs4575494	0.81[ASN][1000 genomes]
rs4605126	0.88[AFR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4886538	0.89[ASN][1000 genomes]
rs4886539	0.89[ASN][1000 genomes]
rs4886540	0.87[ASN][1000 genomes]
rs4886542	0.82[ASN][1000 genomes]
rs4886543	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4886966	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4886968	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4886969	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4886971	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4886972	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4886974	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55849958	0.81[ASN][1000 genomes]
rs56082827	0.89[ASN][1000 genomes]
rs57630695	0.89[ASN][1000 genomes]
rs57708464	0.87[ASN][1000 genomes]
rs58158543	0.81[ASN][1000 genomes]
rs58331113	0.94[ASN][1000 genomes]
rs58851319	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59521538	0.83[ASN][1000 genomes]
rs59711627	0.87[ASN][1000 genomes]
rs60003906	0.89[ASN][1000 genomes]
rs60729630	0.86[ASN][1000 genomes]
rs60778112	0.86[ASN][1000 genomes]
rs6495264	0.86[ASN][1000 genomes]
rs66955965	0.86[ASN][1000 genomes]
rs67630434	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67793790	0.90[ASN][1000 genomes]
rs71400918	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71400932	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs71400933	0.82[AMR][1000 genomes]
rs7169893	0.86[ASN][1000 genomes]
rs7170652	0.86[ASN][1000 genomes]
rs72732507	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73456876	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7403009	0.84[ASN][1000 genomes]
rs8024681	0.86[ASN][1000 genomes]
rs8024765	0.84[ASN][1000 genomes]
rs8025691	0.84[ASN][1000 genomes]
rs8030318	0.86[ASN][1000 genomes]
rs8030492	0.86[ASN][1000 genomes]
rs8036225	0.81[ASN][1000 genomes]
rs8036976	0.81[ASN][1000 genomes]
rs8039040	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1806097	chr15:77817889-78301377	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv529491	chr15:77932659-78751516	Genic enhancers Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
3	nsv833062	chr15:78035206-78220358	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	esv1833316	chr15:78081307-78328108	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv904426	chr15:78090630-78264164	Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv904427	chr15:78129964-78251431	Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv976954	chr15:78153346-78255825	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv1046383	chr15:78153850-78229596	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv904428	chr15:78156238-78230906	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
10	nsv904429	chr15:78160362-78251431	Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
11	esv1823600	chr15:78200594-78219757	Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
12	esv18540	chr15:78202973-78227329	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island lncRNA	3 gene(s)	inside rSNPs	diseases
13	nsv9281	chr15:78213140-78225495	Enhancers Weak transcription Active TSS Bivalent Enhancer	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:78180000-78215600	Weak transcription	Right Atrium	heart
2	chr15:78203200-78220200	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr15:78203200-78227400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr15:78214200-78214600	Bivalent Enhancer	Fetal Stomach	stomach

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