Variant report

Variant	rs11070343
Chromosome Location	chr15:41940146-41940147
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:41939185..41941981-chr15:41952544..41954491,2	MCF-7	breast:
2	chr15:41926831..41929447-chr15:41939833..41942397,2	K562	blood:
3	chr15:41939277..41941005-chr15:41945553..41947159,2	MCF-7	breast:
4	chr15:41938340..41941211-chr15:41951794..41954660,3	K562	blood:

Variant related genes	Relation type
ENSG00000174197	Chromatin interaction

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

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

rs_ID	r²[population]
rs1107858	0.80[EUR][1000 genomes]
rs11629678	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11637341	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11639043	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16952372	0.93[ASN][1000 genomes]
rs17676742	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17677199	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17733613	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2004162	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2412622	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28526689	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28708888	0.87[EUR][1000 genomes]
rs4923905	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4924570	0.82[ASN][1000 genomes]
rs62002066	0.82[ASN][1000 genomes]
rs8023311	0.81[ASN][1000 genomes]
rs9672298	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9672360	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9672671	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[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
rs11070343	MGA	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41924800-41940400	Weak transcription	Brain Substantia Nigra	brain
2	chr15:41924800-41940400	Weak transcription	Fetal Kidney	kidney
3	chr15:41925000-41952200	Weak transcription	Ovary	ovary
4	chr15:41927000-41951800	Weak transcription	Hela-S3	cervix
5	chr15:41929800-41940400	Weak transcription	Fetal Intestine Small	intestine
6	chr15:41929800-41940800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr15:41931200-41941200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr15:41933200-41945000	Weak transcription	Right Atrium	heart
9	chr15:41936200-41940800	Weak transcription	NHEK	skin
10	chr15:41937400-41940400	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr15:41938200-41940200	Enhancers	Monocytes-CD14+_RO01746	blood
12	chr15:41938200-41940800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr15:41938400-41940400	Weak transcription	NHDF-Ad	bronchial
14	chr15:41938800-41940600	Enhancers	A549	lung
15	chr15:41939000-41940200	Enhancers	Primary hematopoietic stem cells short term culture	blood
16	chr15:41939000-41941200	Weak transcription	Psoas Muscle	Psoas
17	chr15:41939000-41942000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr15:41939200-41940800	Enhancers	Osteobl	bone
19	chr15:41939200-41941800	Enhancers	Muscle Satellite Cultured Cells	--
20	chr15:41939400-41940200	Weak transcription	Liver	Liver
21	chr15:41939400-41940800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr15:41939400-41941200	Enhancers	Fetal Intestine Large	intestine
23	chr15:41939400-41941400	Enhancers	HepG2	liver
24	chr15:41939600-41941200	Enhancers	HSMM	muscle
25	chr15:41939600-41941800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr15:41940000-41940800	Enhancers	Pancreatic Islets	Pancreatic Islet
27	chr15:41940000-41942800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr15:41940000-41947800	Weak transcription	Dnd41	blood

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