Variant report

Variant	rs4649957
Chromosome Location	chr1:72949748-72949749
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10789338	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10789340	0.91[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs1084439	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1084440	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1084441	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10889955	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10889958	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11209961	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11209968	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11209969	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11209972	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12026130	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12033462	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12035763	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12035943	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12759396	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1373913	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1445581	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1445582	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1596762	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1599334	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1822977	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1822979	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1824530	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1838662	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1903372	0.89[EUR][1000 genomes]
rs2121055	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2121056	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2422222	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2613473	0.89[EUR][1000 genomes]
rs2815767	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs290702	0.80[EUR][1000 genomes]
rs290703	0.80[EUR][1000 genomes]
rs4649956	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4650133	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4650138	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4650139	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6424471	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7523080	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7531797	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7534013	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7535539	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7536869	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7550173	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs782207	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs782208	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs782210	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs782219	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs782239	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs782243	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs782244	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs782246	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs782252	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs813004	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4649957	RP11-292O17.1	cis	Nerve Tibial	GTEx

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:72947000-72950000	Enhancers	Thymus	Thymus
2	chr1:72947200-72950000	Enhancers	Dnd41	blood
3	chr1:72948400-72949800	Enhancers	Primary T cells from cord blood	blood
4	chr1:72948600-72950000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr1:72948600-72950600	Enhancers	HepG2	liver
6	chr1:72948800-72949800	Weak transcription	Fetal Lung	lung
7	chr1:72948800-72949800	Weak transcription	Fetal Thymus	thymus
8	chr1:72948800-72950400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr1:72949400-72950000	Enhancers	Fetal Intestine Small	intestine
10	chr1:72949600-72949800	Enhancers	Fetal Intestine Large	intestine

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