Variant report

Variant	rs1320547
Chromosome Location	chr9:96719724-96719725
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SUZ12	chr9:96719499-96722002	H1-hESC	embryonic stem cell:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr9:96709646..96715968-chr9:96715980..96721050,10	MCF-7	breast:
2	chr9:96718522..96721455-chr9:96725392..96727968,2	MCF-7	breast:
3	chr9:96442742..96446259-chr9:96719078..96722660,3	MCF-7	breast:

Variant related genes	Relation type
BARX1	TF binding region
ENSG00000131668	Chromatin interaction

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10117457	0.87[EUR][1000 genomes]
rs10122334	0.83[CEU][hapmap];0.85[CHB][hapmap]
rs10123954	0.88[EUR][1000 genomes]
rs10429556	0.89[CEU][hapmap];0.95[CHB][hapmap];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10429603	0.86[AFR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10435922	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10435924	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10739967	0.98[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10739969	0.85[CEU][hapmap];0.95[CHB][hapmap]
rs10761308	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10761309	0.96[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.81[YRI][hapmap];0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10761313	0.93[AFR][1000 genomes];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10761315	0.85[CEU][hapmap];0.95[CHB][hapmap]
rs10821284	0.86[AFR][1000 genomes];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10821285	0.93[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.81[YRI][hapmap];0.86[AFR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10993010	0.81[AFR][1000 genomes]
rs10993037	0.83[EUR][1000 genomes]
rs10993058	0.81[CEU][hapmap]
rs12351292	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12684427	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1316814	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1331216	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1331217	0.93[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.90[YRI][hapmap];0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1331218	0.93[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1331219	0.96[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1343995	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1360429	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1411860	0.93[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1418251	0.89[CEU][hapmap];0.95[CHB][hapmap];0.82[EUR][1000 genomes]
rs1576640	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1590969	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1592153	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1832857	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1854835	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1933667	0.81[EUR][1000 genomes]
rs1933668	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1933669	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1933679	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2026917	0.86[AFR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2094927	0.96[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2150625	0.89[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2153058	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2153070	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2153792	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2211362	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2225458	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2226117	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3847307	0.85[CEU][hapmap];0.95[CHB][hapmap]
rs3996241	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4282631	0.96[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4744308	0.89[CEU][hapmap];0.95[CHB][hapmap];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4744310	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4744316	0.85[CEU][hapmap];0.95[CHB][hapmap]
rs55763839	0.81[AFR][1000 genomes]
rs6479522	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6479527	0.81[CEU][hapmap]
rs6479528	0.81[CEU][hapmap]
rs7033481	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7033898	0.93[CEU][hapmap];0.95[CHB][hapmap];0.82[AFR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7045643	0.89[CEU][hapmap];0.95[CHB][hapmap];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7858069	0.93[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7867253	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7867925	0.89[CEU][hapmap];0.95[CHB][hapmap]
rs914295	0.89[CEU][hapmap];0.95[CHB][hapmap];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs914296	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs914297	0.89[CEU][hapmap];0.95[CHB][hapmap];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9299414	0.89[CEU][hapmap];0.94[CHB][hapmap];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs987511	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893589	chr9:96624645-96884544	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv824993	chr9:96699362-96725105	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv893590	chr9:96701287-96729129	Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96718400-96720800	Weak transcription	Right Atrium	heart
2	chr9:96718400-96721000	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:96718400-96721200	Weak transcription	Pancreas	Pancrea
4	chr9:96718400-96722000	Weak transcription	Hela-S3	cervix
5	chr9:96718600-96720400	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
6	chr9:96719000-96719800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
7	chr9:96719200-96722000	Flanking Active TSS	Stomach Smooth Muscle	stomach
8	chr9:96719400-96721200	Weak transcription	Gastric	stomach
9	chr9:96719600-96719800	Bivalent Enhancer	Rectal Mucosa Donor 29	rectum

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