Variant report

Variant	rs34919006
Chromosome Location	chr3:23277720-23277721
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	chr3:23267196..23270682-chr3:23275861..23279079,3	MCF-7	breast:

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs1013460	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1027379	0.84[ASN][1000 genomes]
rs11129113	0.87[ASN][1000 genomes]
rs11129116	0.86[ASN][1000 genomes]
rs11708117	0.84[ASN][1000 genomes]
rs11708176	0.80[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs11720461	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs11920019	0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs12330262	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12330479	0.91[ASN][1000 genomes]
rs12493361	0.88[ASN][1000 genomes]
rs12497974	0.84[ASN][1000 genomes]
rs12629848	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13080261	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13080401	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13081371	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1495131	0.87[ASN][1000 genomes]
rs1532355	0.84[ASN][1000 genomes]
rs1552930	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17012812	0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17012869	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1874235	0.82[ASN][1000 genomes]
rs1973400	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2055154	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2172828	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4241511	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4488778	0.84[ASN][1000 genomes]
rs4858062	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4858064	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4858483	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4858484	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4858491	0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4858492	0.80[AMR][1000 genomes]
rs4858496	0.86[ASN][1000 genomes]
rs4858497	0.84[ASN][1000 genomes]
rs4858500	0.86[ASN][1000 genomes]
rs4858501	0.86[ASN][1000 genomes]
rs4858502	0.85[ASN][1000 genomes]
rs4858506	0.81[ASN][1000 genomes]
rs4858508	0.82[ASN][1000 genomes]
rs59429714	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6550746	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6550748	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6784771	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6795492	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6804123	0.88[ASN][1000 genomes]
rs7429470	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7617072	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7622784	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9310715	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9809176	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9816895	0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9821101	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9822422	0.87[ASN][1000 genomes]
rs9826877	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9836787	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9841123	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9841944	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9846398	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9847027	0.88[ASN][1000 genomes]
rs9848077	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9849176	0.87[ASN][1000 genomes]
rs9854148	0.87[ASN][1000 genomes]
rs9854590	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9859515	0.82[ASN][1000 genomes]
rs9861803	0.88[ASN][1000 genomes]
rs9864908	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9865602	0.81[ASN][1000 genomes]
rs9874082	0.86[ASN][1000 genomes]
rs9874822	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834636	chr3:23138653-23301443	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1014701	chr3:23257658-23416094	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23261400-23278200	Weak transcription	Brain Angular Gyrus	brain
2	chr3:23265400-23282000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:23266200-23277800	Weak transcription	Fetal Thymus	thymus
4	chr3:23270600-23278200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr3:23270600-23278400	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr3:23271200-23278200	Weak transcription	Right Ventricle	heart
7	chr3:23272600-23283000	Weak transcription	HMEC	breast
8	chr3:23273600-23277800	Weak transcription	Primary hematopoietic stem cells	blood
9	chr3:23274400-23280800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr3:23274600-23278200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr3:23274600-23278200	Weak transcription	Left Ventricle	heart
12	chr3:23274600-23279800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr3:23274600-23281400	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr3:23274600-23283000	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr3:23274800-23277800	Weak transcription	Brain Substantia Nigra	brain
16	chr3:23274800-23278000	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr3:23274800-23278000	Weak transcription	Primary B cells from peripheral blood	blood
18	chr3:23274800-23278200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr3:23274800-23280200	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr3:23274800-23298200	Weak transcription	Aorta	Aorta
21	chr3:23275000-23277800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr3:23275000-23278000	Weak transcription	Brain Cingulate Gyrus	brain
23	chr3:23275000-23280800	Weak transcription	Brain Anterior Caudate	brain
24	chr3:23276400-23279600	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr3:23276800-23281000	Weak transcription	Fetal Heart	heart
26	chr3:23277000-23279600	Weak transcription	Brain Hippocampus Middle	brain
27	chr3:23277400-23279800	Weak transcription	Psoas Muscle	Psoas
28	chr3:23277400-23280800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links