Variant report

Variant	rs1077714
Chromosome Location	chr15:41876863-41876864
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:41407897..41409667-chr15:41876461..41878858,2	MCF-7	breast:
2	chr15:41870694..41874947-chr15:41876174..41878118,3	K562	blood:
3	chr15:41870467..41873632-chr15:41874350..41878118,3	K562	blood:

Variant related genes	Relation type
ENSG00000128908	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10438299	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12906912	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12915829	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2246444	0.83[EUR][1000 genomes]
rs2277537	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2482307	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28655000	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs28792443	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28844285	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3784283	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4924552	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4924554	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4924556	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4924559	0.88[ASN][1000 genomes]
rs66906913	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs68058196	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7166371	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7183231	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8025165	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1052902	chr15:41869277-41951572	Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1077714	MGA	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41852200-41877400	Weak transcription	Aorta	Aorta
2	chr15:41852400-41877200	Weak transcription	Colon Smooth Muscle	Colon
3	chr15:41852600-41877400	Weak transcription	HMEC	breast
4	chr15:41852800-41877400	Weak transcription	NHEK	skin
5	chr15:41854200-41877000	Weak transcription	Fetal Brain Male	brain
6	chr15:41855400-41877000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr15:41855400-41877200	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr15:41861000-41877200	Weak transcription	HUVEC	blood vessel
9	chr15:41861200-41877000	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr15:41864200-41877000	Weak transcription	Fetal Kidney	kidney
11	chr15:41865800-41877000	Weak transcription	Duodenum Mucosa	Duodenum
12	chr15:41865800-41877000	Weak transcription	Stomach Smooth Muscle	stomach
13	chr15:41865800-41877200	Weak transcription	NHLF	lung
14	chr15:41867600-41877200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr15:41867600-41877200	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr15:41868000-41877000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr15:41868000-41877400	Weak transcription	Esophagus	oesophagus
18	chr15:41871000-41877200	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr15:41871200-41877000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr15:41871200-41877000	Weak transcription	Fetal Brain Female	brain
21	chr15:41871200-41877000	Weak transcription	Spleen	Spleen
22	chr15:41871200-41877200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr15:41871200-41877200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr15:41871200-41877200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr15:41871200-41877200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr15:41871200-41877200	Weak transcription	Right Atrium	heart
27	chr15:41871200-41877400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr15:41871200-41877400	Weak transcription	Gastric	stomach
29	chr15:41871400-41877000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr15:41871400-41877000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr15:41871400-41877000	Weak transcription	HUES48 Cell Line	embryonic stem cell
32	chr15:41871400-41877000	Weak transcription	Adipose Nuclei	Adipose
33	chr15:41871400-41877000	Weak transcription	Brain Cingulate Gyrus	brain
34	chr15:41871400-41877200	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr15:41871400-41877200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr15:41871400-41877200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr15:41871400-41877200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr15:41871400-41877200	Weak transcription	Brain Angular Gyrus	brain
39	chr15:41871400-41877200	Weak transcription	Brain Anterior Caudate	brain
40	chr15:41871400-41877200	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr15:41871400-41877200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr15:41871400-41877200	Weak transcription	Brain Substantia Nigra	brain
43	chr15:41871400-41877200	Weak transcription	Pancreas	Pancrea
44	chr15:41871400-41877200	Weak transcription	Right Ventricle	heart
45	chr15:41871400-41877400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr15:41871600-41877000	Weak transcription	Ovary	ovary
47	chr15:41871800-41877000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr15:41871800-41877000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr15:41871800-41877000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr15:41871800-41877000	Weak transcription	Fetal Muscle Leg	muscle

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