Variant report

Variant	rs17521615
Chromosome Location	chr2:141776841-141776842
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:20)

rs_ID	r²[population]
rs10496864	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11888460	0.85[MEX][hapmap];0.82[TSI][hapmap]
rs12471645	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12471736	0.96[ASN][1000 genomes]
rs12471842	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12474699	0.96[ASN][1000 genomes]
rs12475929	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12475930	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12619314	0.90[JPT][hapmap]
rs12623323	0.82[JPT][hapmap];0.81[YRI][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12624219	0.82[ASW][hapmap];0.89[CHB][hapmap];0.86[GIH][hapmap];0.85[JPT][hapmap];0.93[LWK][hapmap];0.93[MEX][hapmap];0.91[TSI][hapmap];0.80[YRI][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1525597	0.84[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.83[MKK][hapmap];0.89[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1525599	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];0.95[JPT][hapmap];0.86[LWK][hapmap];0.86[MEX][hapmap];0.88[TSI][hapmap];0.90[YRI][hapmap];0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs16845115	0.82[ASW][hapmap];0.89[CHB][hapmap];0.86[GIH][hapmap];0.85[JPT][hapmap];0.93[LWK][hapmap];0.93[MEX][hapmap];0.91[TSI][hapmap];0.80[YRI][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2091300	0.85[EUR][1000 genomes]
rs34168519	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57639568	0.93[ASN][1000 genomes]
rs61032295	0.93[ASN][1000 genomes]
rs72975061	0.88[ASN][1000 genomes]
rs7609294	0.81[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	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	nsv875208	chr2:141657878-141795620	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1014208	chr2:141707558-141790148	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	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
5	nsv875210	chr2:141764693-141818657	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv875211	chr2:141764693-141846346	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:141773600-141777400	Weak transcription	HSMM	muscle
2	chr2:141773600-141806800	Weak transcription	Brain Angular Gyrus	brain
3	chr2:141773800-141778400	Weak transcription	HSMMtube	muscle
4	chr2:141774200-141785000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr2:141774600-141779800	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr2:141775600-141777200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links