Variant report

Variant	rs165379
Chromosome Location	chr2:180692742-180692743
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10153833	0.96[CEU][hapmap]
rs10930887	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12053220	0.90[JPT][hapmap]
rs12053223	0.90[JPT][hapmap]
rs12053553	0.90[JPT][hapmap]
rs12328338	0.93[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12465175	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs13014995	0.96[CEU][hapmap]
rs1352111	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[EUR][1000 genomes]
rs1383413	0.84[CEU][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1486233	0.86[ASN][1000 genomes]
rs165373	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs165374	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs165380	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs165381	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16867045	1.00[JPT][hapmap]
rs187745	0.93[CEU][hapmap];0.93[CHB][hapmap];0.90[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs194674	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2219670	0.93[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2367797	0.84[CEU][hapmap];0.90[JPT][hapmap];0.80[EUR][1000 genomes]
rs259831	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs259833	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2630539	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28520865	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs357711	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs357712	1.00[CEU][hapmap];0.81[CHB][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs357714	1.00[CEU][hapmap]
rs4894131	0.81[CEU][hapmap]
rs56152328	0.91[ASN][1000 genomes]
rs6433810	0.87[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs6433811	0.87[CHB][hapmap];0.90[JPT][hapmap];0.92[ASN][1000 genomes]
rs6725456	0.92[CEU][hapmap]
rs6752731	0.92[CEU][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7557122	0.92[CEU][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7588035	0.89[CEU][hapmap]
rs7597666	0.92[CEU][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002305	chr2:180568558-180812846	Enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
2	nsv428731	chr2:180629389-180805171	Weak transcription Bivalent/Poised TSS Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:180691200-180696600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr2:180691200-180696600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr2:180691400-180696600	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr2:180691800-180697000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr2:180692000-180702000	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr2:180692000-180704400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links