Variant report

Variant	rs1450109
Chromosome Location	chr3:156088483-156088484
allele	A/C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10513487	1.00[CHB][hapmap];0.85[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11706548	1.00[CHB][hapmap];0.85[JPT][hapmap];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11708859	1.00[CHB][hapmap];0.85[JPT][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11719801	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11926141	1.00[CHB][hapmap];0.85[JPT][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11926292	1.00[CHB][hapmap];0.85[JPT][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12054022	1.00[CHB][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs12107383	1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13324876	0.86[JPT][hapmap]
rs1450105	1.00[CHB][hapmap];0.85[JPT][hapmap];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1450106	1.00[CHB][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1450107	1.00[CHB][hapmap];0.85[JPT][hapmap];0.84[ASN][1000 genomes]
rs1450111	1.00[CHB][hapmap];0.85[JPT][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16826083	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs16826108	1.00[CHB][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs17238004	1.00[CHB][hapmap];0.82[JPT][hapmap];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17238018	1.00[CHB][hapmap];0.85[JPT][hapmap];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17238651	1.00[CHB][hapmap];0.85[JPT][hapmap];0.84[ASN][1000 genomes]
rs17309427	1.00[CHB][hapmap];0.85[JPT][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1851555	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3755629	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3755630	1.00[CHB][hapmap];0.82[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3772245	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3772249	1.00[CHB][hapmap];0.85[JPT][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3772250	1.00[CHB][hapmap];0.85[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3772252	1.00[CHB][hapmap];0.85[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3772253	1.00[CHB][hapmap];0.85[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3772254	0.82[CHB][hapmap];0.85[JPT][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3772255	1.00[CHB][hapmap];0.85[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3772256	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3772257	1.00[CHB][hapmap];0.85[JPT][hapmap];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3772260	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3772261	1.00[CHB][hapmap];0.85[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3796166	1.00[CHB][hapmap];0.85[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3821417	1.00[CHB][hapmap];0.82[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3821419	1.00[CHB][hapmap];0.85[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4989481	1.00[CHB][hapmap]
rs55642716	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6441064	1.00[CHB][hapmap];0.85[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441065	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6441066	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6441067	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6781728	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6790537	1.00[CHB][hapmap];0.85[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73164709	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73164745	0.84[ASN][1000 genomes]
rs7613469	1.00[CHB][hapmap];0.85[JPT][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7615568	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7619720	1.00[CHB][hapmap];0.85[JPT][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7619831	1.00[CHB][hapmap];0.85[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7622423	1.00[CHB][hapmap];0.85[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7631581	1.00[CHB][hapmap];0.85[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs938417	1.00[CHB][hapmap];0.85[JPT][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs940050	1.00[CHB][hapmap];0.85[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9819261	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9846546	1.00[CHB][hapmap];0.85[JPT][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9850840	1.00[CHB][hapmap];0.82[JPT][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9853634	1.00[CHB][hapmap];0.82[JPT][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9855401	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[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	nsv1014755	chr3:155889430-156411894	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
2	esv1793356	chr3:156079516-156093505	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
3	esv1803569	chr3:156081835-156093273	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv1813303	chr3:156081835-156093505	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv1814153	chr3:156081835-156093505	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156076400-156091600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:156083800-156090200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:156084600-156090200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr3:156086200-156090000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr3:156086200-156090000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr3:156086200-156090200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr3:156086400-156090200	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr3:156086600-156089800	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr3:156086600-156090000	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr3:156086600-156090200	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr3:156086800-156090200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr3:156086800-156090200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr3:156087200-156088800	Enhancers	Fetal Stomach	stomach
14	chr3:156087600-156089800	Enhancers	Colon Smooth Muscle	Colon
15	chr3:156088400-156088600	Enhancers	Placenta	Placenta
16	chr3:156088400-156088800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr3:156088400-156089600	Weak transcription	Rectal Smooth Muscle	rectum

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