Variant report

Variant	rs4832260
Chromosome Location	chr2:86483340-86483341
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	chr2:86478613..86482066-chr2:86482381..86485605,3	MCF-7	breast:
2	chr2:86477514..86479330-chr2:86482414..86484551,2	MCF-7	breast:

Extended variants
information (count: 98 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10165626	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10204589	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11127019	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11127020	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11127021	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11127024	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11674249	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11675942	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11676515	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11680025	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11681689	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11687392	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11689971	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11691807	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12052607	0.82[EUR][1000 genomes]
rs12466728	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12476826	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12988844	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13005014	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13024436	0.87[ASN][1000 genomes]
rs17438687	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17738058	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1863050	0.93[ASN][1000 genomes]
rs1863055	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1863056	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1863057	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1863058	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1863059	0.82[EUR][1000 genomes]
rs1863060	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1863061	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2113615	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2276625	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2303358	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2303359	0.82[EUR][1000 genomes]
rs2367232	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28488524	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34705107	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35146160	0.94[ASN][1000 genomes]
rs35353674	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35408390	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35494267	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs35723061	0.94[ASN][1000 genomes]
rs36079379	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs36104799	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4610056	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4832030	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4832031	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4832033	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4832036	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4832261	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4832262	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4832263	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4832264	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4832265	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4832267	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4832268	0.82[AMR][1000 genomes]
rs4832270	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4832271	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4832272	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4832276	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4832277	0.93[ASN][1000 genomes]
rs56282355	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56394965	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57270703	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6547668	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6705366	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6713378	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6713740	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6725234	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6738585	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6745235	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs718292	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7560886	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7568971	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7569654	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7583074	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7595785	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9309635	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9677502	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:19 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2751903	chr2:86253542-86505453	Active TSS Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv1007474	chr2:86281967-86505453	Enhancers Flanking Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv997563	chr2:86281967-86506132	Genic enhancers Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
4	nsv1008924	chr2:86282722-86499402	Genic enhancers Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
5	nsv999956	chr2:86285944-86505453	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
6	nsv1012768	chr2:86285944-86506132	Strong transcription Weak transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
7	nsv1003207	chr2:86286314-86496732	Genic enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
8	nsv1000441	chr2:86286314-86508168	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
9	nsv535808	chr2:86286314-86508168	Genic enhancers Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
10	nsv1004442	chr2:86286480-86506132	Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
11	nsv916616	chr2:86289130-86509326	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
12	nsv458563	chr2:86292341-86507688	Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
13	nsv582370	chr2:86292341-86507688	Flanking Active TSS Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
14	nsv1009140	chr2:86294939-86506132	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
15	nsv582371	chr2:86296566-86507688	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
16	nsv1001157	chr2:86301440-86508168	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
17	esv3412938	chr2:86370969-86867936	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
18	nsv458574	chr2:86385728-86507688	Enhancers Flanking Active TSS Genic enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
19	nsv582372	chr2:86385728-86507688	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4832260	MRPL35	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:86472000-86497200	Weak transcription	Fetal Intestine Large	intestine
2	chr2:86472400-86484800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr2:86477800-86493200	Weak transcription	Fetal Muscle Trunk	muscle
4	chr2:86478200-86498600	Weak transcription	Brain Angular Gyrus	brain
5	chr2:86478400-86491400	Weak transcription	Brain Cingulate Gyrus	brain
6	chr2:86479800-86485200	Weak transcription	Fetal Brain Female	brain
7	chr2:86480600-86486200	Strong transcription	Brain Germinal Matrix	brain
8	chr2:86480800-86484600	Weak transcription	HSMMtube	muscle
9	chr2:86480800-86485600	Weak transcription	Fetal Intestine Small	intestine
10	chr2:86481400-86484600	Enhancers	Duodenum Smooth Muscle	Duodenum
11	chr2:86482200-86483400	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr2:86482200-86483400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr2:86482200-86483400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr2:86482400-86483600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr2:86482400-86483600	Weak transcription	NHEK	skin
16	chr2:86482400-86498400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr2:86482600-86483400	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr2:86482600-86483600	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr2:86482600-86483600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr2:86482600-86483800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr2:86482600-86491000	Weak transcription	Brain Anterior Caudate	brain
22	chr2:86482600-86497800	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr2:86482800-86483600	Weak transcription	Right Ventricle	heart
24	chr2:86482800-86483800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr2:86482800-86483800	Weak transcription	Lung	lung
26	chr2:86482800-86484400	Enhancers	Colon Smooth Muscle	Colon
27	chr2:86482800-86484800	Enhancers	Rectal Smooth Muscle	rectum
28	chr2:86482800-86487400	Weak transcription	Aorta	Aorta
29	chr2:86482800-86493000	Weak transcription	Fetal Stomach	stomach
30	chr2:86482800-86495000	Weak transcription	Fetal Brain Male	brain
31	chr2:86482800-86495600	Weak transcription	Fetal Muscle Leg	muscle
32	chr2:86483000-86483400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr2:86483000-86483400	Weak transcription	Esophagus	oesophagus
34	chr2:86483000-86484200	Enhancers	Stomach Smooth Muscle	stomach
35	chr2:86483200-86484200	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chr2:86483200-86489400	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr2:86483200-86493000	Weak transcription	Right Atrium	heart
38	chr2:86483200-86501800	Weak transcription	Left Ventricle	heart

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