Variant report

Variant	rs7550350
Chromosome Location	chr1:150003513-150003514
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr1:150001605..150003568-chr1:150005160..150008934,3	K562	blood:
2	chr1:150003443..150005819-chr1:150028195..150029802,2	MCF-7	breast:
3	chr1:149993032..149997672-chr1:150001811..150004898,5	K562	blood:
4	chr1:149997237..149999198-chr1:150001935..150003672,2	MCF-7	breast:
5	chr1:150000977..150003866-chr1:150038010..150039668,2	MCF-7	breast:
6	chr1:150003285..150005353-chr1:150007041..150008892,2	MCF-7	breast:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-VPS45-6	chr1:150001446-150003978	NONHSAT006264

No data

Variant related genes	Relation type
ENSG00000136631	Chromatin interaction

Extended variants
information (count: 169 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:168)

rs_ID	r²[population]
rs10494261	1.00[CHB][hapmap]
rs10494264	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10494363	1.00[CHB][hapmap]
rs10749674	1.00[CHB][hapmap];0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10888568	0.97[EUR][1000 genomes]
rs10888569	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10888572	0.82[EUR][1000 genomes]
rs1105209	1.00[CHB][hapmap]
rs11205308	1.00[CHB][hapmap]
rs11205316	0.99[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11205317	0.96[EUR][1000 genomes]
rs11205319	0.96[EUR][1000 genomes]
rs11205321	1.00[CHB][hapmap];0.95[EUR][1000 genomes]
rs11205326	1.00[CHB][hapmap];0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11205329	0.83[EUR][1000 genomes]
rs11205331	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11205333	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11577346	1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs11583720	1.00[CHB][hapmap];0.90[EUR][1000 genomes]
rs11584091	1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs11584354	0.91[EUR][1000 genomes]
rs11585955	1.00[CHB][hapmap];0.90[EUR][1000 genomes]
rs11587963	0.87[EUR][1000 genomes]
rs11588837	1.00[CHB][hapmap]
rs11589585	0.96[EUR][1000 genomes]
rs11589922	0.82[EUR][1000 genomes]
rs11591200	1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs12058090	0.96[EUR][1000 genomes]
rs12058502	0.98[EUR][1000 genomes]
rs12060027	1.00[CHB][hapmap];0.97[EUR][1000 genomes]
rs12060211	0.96[EUR][1000 genomes]
rs12060830	1.00[CHB][hapmap]
rs12061167	0.96[EUR][1000 genomes]
rs12061196	0.96[EUR][1000 genomes]
rs12061565	0.96[EUR][1000 genomes]
rs12061856	1.00[CHB][hapmap];0.99[EUR][1000 genomes]
rs12062861	0.95[EUR][1000 genomes]
rs12063059	1.00[CHB][hapmap];0.96[EUR][1000 genomes]
rs12063281	0.98[EUR][1000 genomes]
rs12063329	1.00[CHB][hapmap];0.98[EUR][1000 genomes]
rs12064532	0.92[EUR][1000 genomes]
rs12065681	0.96[EUR][1000 genomes]
rs12066132	1.00[CHB][hapmap];0.96[EUR][1000 genomes]
rs12066293	0.96[EUR][1000 genomes]
rs12067422	0.96[EUR][1000 genomes]
rs12073359	0.99[EUR][1000 genomes]
rs12074281	0.95[EUR][1000 genomes]
rs12077623	1.00[CHB][hapmap]
rs12078573	1.00[CHB][hapmap]
rs12081082	1.00[CHB][hapmap]
rs12086155	1.00[CHB][hapmap]
rs12093499	0.98[EUR][1000 genomes]
rs12098106	0.96[EUR][1000 genomes]
rs12124898	1.00[CHB][hapmap]
rs12138231	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12139248	0.80[EUR][1000 genomes]
rs1339494	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1339495	1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1382573	1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs1545762	1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs16833149	1.00[CHB][hapmap]
rs16835254	1.00[CHB][hapmap]
rs16836630	1.00[CHB][hapmap]
rs17581380	1.00[CHB][hapmap]
rs17643644	1.00[CHB][hapmap]
rs1824848	0.81[EUR][1000 genomes]
rs1824849	0.82[EUR][1000 genomes]
rs1824850	0.82[EUR][1000 genomes]
rs1964542	1.00[CHB][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1975957	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2027349	1.00[CHB][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2039800	1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2044891	1.00[CHB][hapmap]
rs2169895	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2279171	1.00[CHB][hapmap]
rs2318763	1.00[CHB][hapmap];0.86[EUR][1000 genomes]
rs2319280	0.96[EUR][1000 genomes]
rs28366567	0.97[EUR][1000 genomes]
rs28443768	0.99[EUR][1000 genomes]
rs28560140	0.96[EUR][1000 genomes]
rs28660389	0.97[EUR][1000 genomes]
rs28753817	0.96[EUR][1000 genomes]
rs3118119	1.00[CHB][hapmap]
rs3208509	1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3850838	1.00[CHB][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3925724	1.00[CHB][hapmap];0.89[EUR][1000 genomes]
rs4058847	1.00[CHB][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4926388	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4926391	0.81[EUR][1000 genomes]
rs4926406	1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs4926407	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4926408	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4926409	1.00[CHB][hapmap];0.84[EUR][1000 genomes]
rs4926411	1.00[CHB][hapmap];0.80[EUR][1000 genomes]
rs4926412	1.00[CHB][hapmap];0.80[EUR][1000 genomes]
rs55633125	0.96[EUR][1000 genomes]
rs55647342	0.96[EUR][1000 genomes]
rs55802315	0.81[EUR][1000 genomes]
rs55840680	0.87[EUR][1000 genomes]
rs55840906	0.98[EUR][1000 genomes]
rs55909733	0.87[EUR][1000 genomes]
rs55918911	0.97[EUR][1000 genomes]
rs56125600	0.97[EUR][1000 genomes]
rs56188926	0.90[EUR][1000 genomes]
rs56212907	0.90[EUR][1000 genomes]
rs56349882	0.82[EUR][1000 genomes]
rs56369603	0.87[EUR][1000 genomes]
rs57926929	0.88[EUR][1000 genomes]
rs58426216	0.85[EUR][1000 genomes]
rs59607464	0.82[EUR][1000 genomes]
rs6657062	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6666959	1.00[CHB][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6687454	0.98[EUR][1000 genomes]
rs6694729	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72692857	0.98[EUR][1000 genomes]
rs72692861	0.99[EUR][1000 genomes]
rs72692862	0.98[EUR][1000 genomes]
rs72692865	0.96[EUR][1000 genomes]
rs72692866	0.96[EUR][1000 genomes]
rs72692869	0.96[EUR][1000 genomes]
rs72692886	0.91[EUR][1000 genomes]
rs72692893	0.90[EUR][1000 genomes]
rs72692895	0.90[EUR][1000 genomes]
rs72692896	0.90[EUR][1000 genomes]
rs72692897	0.90[EUR][1000 genomes]
rs72692898	0.90[EUR][1000 genomes]
rs72692899	0.90[EUR][1000 genomes]
rs72692900	0.90[EUR][1000 genomes]
rs72692901	0.90[EUR][1000 genomes]
rs72694905	0.88[EUR][1000 genomes]
rs72694906	0.90[EUR][1000 genomes]
rs72694908	0.90[EUR][1000 genomes]
rs72694914	0.89[EUR][1000 genomes]
rs72694915	0.89[EUR][1000 genomes]
rs72694917	0.90[EUR][1000 genomes]
rs72694918	0.90[EUR][1000 genomes]
rs72694919	0.90[EUR][1000 genomes]
rs72694923	0.89[EUR][1000 genomes]
rs72694926	0.87[EUR][1000 genomes]
rs72694927	0.88[EUR][1000 genomes]
rs72694928	0.87[EUR][1000 genomes]
rs72694933	0.87[EUR][1000 genomes]
rs72694936	0.87[EUR][1000 genomes]
rs72694942	0.87[EUR][1000 genomes]
rs72694943	0.88[EUR][1000 genomes]
rs72694944	0.87[EUR][1000 genomes]
rs72694945	0.87[EUR][1000 genomes]
rs72694946	0.86[EUR][1000 genomes]
rs72694950	0.86[EUR][1000 genomes]
rs72694951	0.87[EUR][1000 genomes]
rs72694953	0.87[EUR][1000 genomes]
rs72694954	0.85[EUR][1000 genomes]
rs72694956	0.82[EUR][1000 genomes]
rs72694957	0.82[EUR][1000 genomes]
rs72694959	0.81[EUR][1000 genomes]
rs7519918	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7520930	1.00[CHB][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7521768	1.00[CHB][hapmap]
rs7521783	1.00[CHB][hapmap]
rs7530922	1.00[CHB][hapmap];0.93[EUR][1000 genomes]
rs7532876	1.00[CHB][hapmap]
rs7540847	0.95[EUR][1000 genomes]
rs7544531	1.00[CHB][hapmap]
rs7550323	1.00[CHB][hapmap];0.95[EUR][1000 genomes]
rs7553622	1.00[CHB][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7554367	1.00[CHB][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7555080	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9662055	0.96[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831537	chr1:149833357-150064655	Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	431 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:149985600-150022000	Weak transcription	Brain Substantia Nigra	brain
2	chr1:149993800-150005400	Weak transcription	Fetal Heart	heart
3	chr1:149996600-150037000	Weak transcription	Left Ventricle	heart

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