Variant report

Variant	rs10889958
Chromosome Location	chr1:72956535-72956536
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10789338	0.83[EUR][1000 genomes]
rs10789340	0.81[AFR][1000 genomes]
rs1084439	0.82[EUR][1000 genomes]
rs1084440	0.82[EUR][1000 genomes]
rs1084441	0.82[EUR][1000 genomes]
rs10889955	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11209961	0.83[EUR][1000 genomes]
rs11209968	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11209969	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11209972	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12026130	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12033462	0.82[AMR][1000 genomes]
rs12035763	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12035943	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12759396	0.87[EUR][1000 genomes]
rs1373913	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1445581	0.85[EUR][1000 genomes]
rs1445582	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1596762	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1822977	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1822979	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1824530	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1838662	0.83[EUR][1000 genomes]
rs2121055	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2121056	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2422222	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4649956	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4649957	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4650133	0.83[EUR][1000 genomes]
rs4650138	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4650139	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6424471	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7523080	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7531797	0.86[EUR][1000 genomes]
rs7534013	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7535539	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7550173	0.82[AMR][1000 genomes]
rs782239	0.82[EUR][1000 genomes]
rs782243	0.83[EUR][1000 genomes]
rs782252	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422432	chr1:72821856-73148651	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv871873	chr1:72861847-72975877	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv870463	chr1:72861847-72995398	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv871758	chr1:72861847-72995398	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv830215	chr1:72869049-73029787	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv546563	chr1:72956037-73041879	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10889958	RP11-292O17.1	cis	Nerve Tibial	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:72956200-72961600	Weak transcription	Fetal Lung	lung

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