Variant report

Variant	rs2049153
Chromosome Location	chr2:141998656-141998657
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10188773	0.91[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13424853	0.96[CEU][hapmap]
rs1521102	0.91[CEU][hapmap];0.86[CHB][hapmap];0.97[CHD][hapmap];0.91[GIH][hapmap];0.94[JPT][hapmap];0.91[LWK][hapmap];0.85[MEX][hapmap];0.87[MKK][hapmap];0.91[TSI][hapmap]
rs1521108	0.81[MEX][hapmap]
rs16845762	0.96[CEU][hapmap]
rs2139149	0.81[CHB][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs300369	0.87[CEU][hapmap];0.95[CHB][hapmap]
rs300406	0.88[EUR][1000 genomes]
rs373908	0.86[CEU][hapmap]
rs384507	0.96[CEU][hapmap];0.95[CHB][hapmap];0.81[CHD][hapmap];0.93[GIH][hapmap];0.80[MEX][hapmap];0.95[TSI][hapmap];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs387846	0.87[CEU][hapmap];0.95[CHB][hapmap]
rs389593	0.94[CHB][hapmap]
rs399117	0.96[CEU][hapmap];0.95[CHB][hapmap]
rs416307	0.89[EUR][1000 genomes]
rs423807	0.89[EUR][1000 genomes]
rs434276	0.91[CEU][hapmap];0.95[CHB][hapmap];0.81[CHD][hapmap];0.80[MEX][hapmap];0.83[ASN][1000 genomes]
rs442660	0.96[CEU][hapmap];0.82[GIH][hapmap];0.98[TSI][hapmap];0.90[EUR][1000 genomes]
rs4954697	0.87[CEU][hapmap];0.86[CHB][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6712429	0.88[CHD][hapmap];0.86[TSI][hapmap]
rs6719988	0.96[CEU][hapmap]
rs7560336	0.85[CEU][hapmap]
rs7560604	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9283437	0.96[CEU][hapmap];0.95[CHB][hapmap];0.81[CHD][hapmap];0.95[MEX][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs955681	0.86[CHB][hapmap]
rs962904	0.95[CEU][hapmap];0.95[CHB][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs969575	0.88[CHD][hapmap]

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	nsv583198	chr2:141510791-142150620	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv817518	chr2:141714174-142287302	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1003799	chr2:141803314-142033675	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1009434	chr2:141832339-142156180	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1005236	chr2:141860005-142047695	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv535948	chr2:141860005-142047695	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2049153	LRRC66	trans	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:141998200-142000400	Enhancers	Fetal Heart	heart

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