Variant report

Variant	rs9307329
Chromosome Location	chr4:110282363-110282364
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-COL25A1-1	chr4:110282107-110282462	NONHSAT097778

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10005198	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10007410	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10014623	0.82[ASN][1000 genomes]
rs10031251	0.92[ASN][1000 genomes]
rs10031399	0.92[ASN][1000 genomes]
rs10155246	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10488879	0.81[ASN][1000 genomes]
rs11933172	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11939924	0.86[EUR][1000 genomes]
rs12641197	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12641272	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13104799	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13113384	0.89[EUR][1000 genomes]
rs13119700	0.89[EUR][1000 genomes]
rs13126829	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13138833	0.89[EUR][1000 genomes]
rs1557804	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17235830	0.96[ASN][1000 genomes]
rs17842269	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1859144	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1859145	1.00[ASN][1000 genomes]
rs1859146	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1859147	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1981540	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1981541	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2079108	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2214377	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2346014	0.89[EUR][1000 genomes]
rs28374470	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28463999	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28542804	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28585579	0.89[EUR][1000 genomes]
rs28628718	0.89[EUR][1000 genomes]
rs28749845	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4524460	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6533426	0.89[EUR][1000 genomes]
rs6825928	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs6826161	1.00[CHB][hapmap]
rs6827985	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6841133	0.89[EUR][1000 genomes]
rs6841222	0.89[EUR][1000 genomes]
rs730310	0.96[ASN][1000 genomes]
rs7665024	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7673595	1.00[CEU][hapmap]
rs7673867	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7675344	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7680752	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7680920	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7684744	0.89[EUR][1000 genomes]
rs7685787	0.89[EUR][1000 genomes]
rs7694523	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7695754	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs7699247	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs876464	0.89[EUR][1000 genomes]
rs9993228	0.89[EUR][1000 genomes]
rs9996165	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9996432	0.89[EUR][1000 genomes]
rs9996537	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9996920	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9999270	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9999278	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9999751	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv461613	chr4:109922064-110593460	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv595129	chr4:109922064-110593460	Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110281200-110287000	Weak transcription	HUVEC	blood vessel
2	chr4:110282200-110282400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr4:110282200-110282400	Bivalent Enhancer	Primary hematopoietic stem cells	blood
4	chr4:110282200-110282400	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
5	chr4:110282200-110282400	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr4:110282200-110282400	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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