Variant report

Variant	rs653896
Chromosome Location	chr9:9558791-9558792
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10739194	0.83[CHB][hapmap]
rs10977842	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs1326769	0.88[JPT][hapmap]
rs1359698	1.00[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs588996	0.81[JPT][hapmap]
rs591074	0.82[JPT][hapmap];0.97[YRI][hapmap]
rs602962	0.81[JPT][hapmap]
rs606365	0.91[CHB][hapmap];0.94[JPT][hapmap];0.97[YRI][hapmap]
rs609641	0.95[CEU][hapmap];0.88[JPT][hapmap]
rs612092	0.83[CHB][hapmap]
rs616850	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[YRI][hapmap]
rs617286	0.81[JPT][hapmap]
rs625165	0.83[CHB][hapmap]
rs625900	0.83[CHB][hapmap]
rs626391	0.83[CHB][hapmap]
rs627247	0.83[CHB][hapmap]
rs638230	0.91[CEU][hapmap];0.94[JPT][hapmap]
rs647038	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs647190	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs6477400	0.87[CEU][hapmap]
rs649649	0.91[CEU][hapmap];0.81[JPT][hapmap]
rs652649	0.90[CEU][hapmap];0.94[JPT][hapmap]
rs660717	1.00[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap]
rs666041	0.81[CHB][hapmap]
rs669190	0.81[JPT][hapmap]
rs671823	0.95[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap];0.94[YRI][hapmap]
rs672211	0.86[CEU][hapmap]
rs684508	0.95[CEU][hapmap];0.82[JPT][hapmap]
rs69781	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs736041	1.00[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap];0.82[YRI][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs736042	1.00[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap];0.97[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7850579	0.87[CEU][hapmap];0.88[JPT][hapmap]
rs828817	0.86[CEU][hapmap]
rs828821	1.00[CEU][hapmap];0.83[CHB][hapmap];0.85[EUR][1000 genomes]
rs828826	1.00[CEU][hapmap];0.82[CHB][hapmap];0.93[YRI][hapmap];0.87[EUR][1000 genomes]
rs828831	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.94[YRI][hapmap]
rs828833	0.81[CHB][hapmap]
rs828836	0.87[CEU][hapmap]
rs828837	0.91[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs864352	0.88[JPT][hapmap]
rs9408769	0.87[CEU][hapmap];0.88[JPT][hapmap]
rs9408770	0.83[CEU][hapmap];0.93[JPT][hapmap]
rs9408772	0.88[CEU][hapmap];0.94[JPT][hapmap]
rs9886769	0.86[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:24 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025791	chr9:9294304-9626331	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv613308	chr9:9409606-9750139	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv1033808	chr9:9431799-9777960	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv892264	chr9:9440838-9796577	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1016118	chr9:9444744-9582169	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv892265	chr9:9476425-9796116	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv613309	chr9:9495226-9574336	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv1023524	chr9:9496356-9666553	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv892266	chr9:9506817-9704501	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv613312	chr9:9516348-9572790	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv892267	chr9:9516348-9588336	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv613313	chr9:9516348-9591059	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv466132	chr9:9516348-9605832	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv613314	chr9:9516348-9605832	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv466133	chr9:9516348-9609283	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
16	nsv613315	chr9:9516348-9609283	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
17	nsv466134	chr9:9526138-9605832	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
18	nsv613316	chr9:9526138-9605832	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
19	nsv466135	chr9:9526811-9605832	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
20	nsv613317	chr9:9526811-9605832	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
21	nsv892268	chr9:9533788-9599213	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
22	nsv466136	chr9:9538589-9605832	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
23	nsv613318	chr9:9538589-9605832	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
24	nsv982612	chr9:9551403-9563649	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:9556200-9559000	Enhancers	H1 Cell Line	embryonic stem cell
2	chr9:9557600-9559600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr9:9557800-9558800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr9:9557800-9559000	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr9:9557800-9559400	Enhancers	H9 Cell Line	embryonic stem cell
6	chr9:9558000-9558800	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr9:9558000-9558800	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr9:9558200-9560400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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