Variant report

Variant	rs12554427
Chromosome Location	chr9:9752342-9752343
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:9751206..9753342-chr9:9765211..9766880,2	MCF-7	breast:

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10816172	0.91[CHB][hapmap];0.96[JPT][hapmap]
rs10816175	0.95[CHB][hapmap];0.91[JPT][hapmap];0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10816176	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10816177	0.94[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs10977937	0.90[CHB][hapmap];0.95[JPT][hapmap]
rs10977939	0.91[CHB][hapmap];0.96[JPT][hapmap]
rs10977941	0.91[CHB][hapmap];0.96[JPT][hapmap]
rs10977945	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10977946	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10977947	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10977948	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10977952	0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs10977953	0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs10977954	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs10977956	0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs10977957	0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs10977963	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10977964	0.89[ASN][1000 genomes]
rs10977970	0.85[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1174579	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs1174583	1.00[CHB][hapmap];0.96[JPT][hapmap]
rs1174584	1.00[CHB][hapmap];0.96[JPT][hapmap];0.91[ASN][1000 genomes]
rs1174585	0.88[ASN][1000 genomes]
rs1174586	1.00[CHB][hapmap];0.96[JPT][hapmap];0.89[ASN][1000 genomes]
rs12236463	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12236514	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12238315	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12238410	1.00[YRI][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12551715	1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12552265	0.95[CHB][hapmap];0.96[JPT][hapmap];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12553611	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12554298	0.94[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12554588	0.87[JPT][hapmap]
rs12554701	0.83[JPT][hapmap]
rs12554796	0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12555110	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs12555408	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12684484	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12686088	0.87[JPT][hapmap]
rs12686662	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs13289361	0.83[JPT][hapmap]
rs1408119	0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[AFR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1408120	0.95[CHB][hapmap];0.96[JPT][hapmap];1.00[YRI][hapmap]
rs1408121	0.95[CHB][hapmap];0.96[JPT][hapmap]
rs1408122	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs16924740	0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs2147068	0.82[EUR][1000 genomes]
rs2209193	0.82[EUR][1000 genomes]
rs2211134	0.87[JPT][hapmap]
rs2252236	1.00[CHB][hapmap];0.96[JPT][hapmap];0.91[ASN][1000 genomes]
rs2252243	1.00[CHB][hapmap];0.91[JPT][hapmap];0.91[ASN][1000 genomes]
rs2382039	0.87[JPT][hapmap]
rs2761710	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs2761762	1.00[YRI][hapmap]
rs2821505	0.86[CHB][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs2821512	0.95[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs2821513	1.00[CHB][hapmap];0.96[JPT][hapmap]
rs4237178	0.83[JPT][hapmap]
rs4490896	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs4628308	0.82[JPT][hapmap]
rs4740986	0.86[JPT][hapmap]
rs4742615	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4742616	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4742618	0.82[EUR][1000 genomes]
rs724330	0.89[ASN][1000 genomes]
rs981790	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	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
4	nsv892270	chr9:9591059-9860735	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv613319	chr9:9630855-9778653	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv1028772	chr9:9631694-9779358	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	esv2422381	chr9:9647540-9887820	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv1020468	chr9:9658670-9780975	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv539983	chr9:9658670-9780975	Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv892274	chr9:9687742-9787587	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv526471	chr9:9718066-9832245	Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	nsv613321	chr9:9724976-9758609	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	nsv1034236	chr9:9728895-9779358	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
14	esv2829906	chr9:9737201-9897866	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:9748600-9752600	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr9:9751800-9753600	Enhancers	Liver	Liver
3	chr9:9752200-9754200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr9:9752200-9754800	Enhancers	Rectal Mucosa Donor 31	rectum

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