Variant report

Variant	rs1561650
Chromosome Location	chr9:21752358-21752359
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10114559	0.91[CHB][hapmap];0.85[JPT][hapmap]
rs10119568	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10119693	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10121899	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10738598	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10738601	0.87[EUR][1000 genomes]
rs10757244	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10757257	0.89[CEU][hapmap];0.91[CHB][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10811597	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10811598	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10811603	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10811608	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10811625	0.88[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap]
rs10811629	0.91[CHB][hapmap]
rs10965117	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10965128	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10965133	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10965134	1.00[CEU][hapmap];0.91[CHB][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10965135	0.93[CEU][hapmap];0.91[CHB][hapmap];0.80[JPT][hapmap];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10965141	0.81[EUR][1000 genomes]
rs10965143	0.92[CEU][hapmap];0.91[CHB][hapmap];0.82[EUR][1000 genomes]
rs10965144	0.92[CEU][hapmap];0.86[CHB][hapmap];0.82[EUR][1000 genomes]
rs10965145	0.82[EUR][1000 genomes]
rs10965153	0.91[CHB][hapmap]
rs12555601	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13298275	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1335503	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1335510	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1335511	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1341866	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1345020	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1345023	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1345024	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1414243	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1414253	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2165409	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3900787	0.88[CEU][hapmap];0.91[CHB][hapmap];0.85[JPT][hapmap]
rs3922992	0.89[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap]
rs4265275	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4364717	0.84[CEU][hapmap]
rs4615669	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs7022754	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7023329	0.91[CHB][hapmap];0.85[JPT][hapmap]
rs7023954	0.88[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap]
rs7029036	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7033879	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7038523	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7049092	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7863942	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029634	chr9:21542970-21765286	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv892743	chr9:21675545-21772064	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv529609	chr9:21708371-22537069	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv1026981	chr9:21748202-21811697	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:21748400-21754400	Weak transcription	Hela-S3	cervix
2	chr9:21748600-21754400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr9:21748800-21754400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr9:21751000-21754000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr9:21751200-21753600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr9:21751200-21753600	Weak transcription	NHEK	skin
7	chr9:21751200-21754000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr9:21751800-21752600	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
9	chr9:21751800-21752600	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
10	chr9:21751800-21752800	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
11	chr9:21751800-21752800	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
12	chr9:21751800-21752800	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
13	chr9:21752000-21752400	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr9:21752000-21752400	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr9:21752000-21752400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr9:21752200-21753600	Weak transcription	HMEC	breast

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