Variant report

Variant	rs4954894
Chromosome Location	chr2:141948004-141948005
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10179688	0.95[CEU][hapmap]
rs10194319	0.92[CEU][hapmap]
rs10496869	0.92[CEU][hapmap]
rs11677400	0.92[CEU][hapmap];0.85[TSI][hapmap]
rs1249426	0.82[CHB][hapmap]
rs13395175	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs13396738	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1401310	0.81[CHB][hapmap]
rs1401313	0.81[CHB][hapmap];0.87[MEX][hapmap]
rs1521103	0.82[MEX][hapmap]
rs16845587	1.00[CEU][hapmap];0.81[CHB][hapmap];0.92[JPT][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17592904	0.83[JPT][hapmap]
rs1850697	0.96[CEU][hapmap];0.91[CHB][hapmap];0.83[GIH][hapmap];0.80[JPT][hapmap];0.91[MEX][hapmap];0.85[TSI][hapmap];0.93[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2380966	0.92[CEU][hapmap]
rs6715585	0.81[CHB][hapmap]
rs6730244	0.88[CEU][hapmap]
rs6757044	0.81[CHB][hapmap];0.83[JPT][hapmap]
rs971251	0.92[CEU][hapmap];0.91[CHB][hapmap];0.82[GIH][hapmap];0.85[JPT][hapmap];0.91[MEX][hapmap];0.80[TSI][hapmap];0.94[AMR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 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	nsv875228	chr2:141841920-141949292	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	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
7	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
8	nsv875229	chr2:141905052-141951944	Enhancers ZNF genes & repeats Weak transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:141947800-141948200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links