Variant report

Variant	rs61318425
Chromosome Location	chr6:109748506-109748507
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:109742336..109749135-chr6:109759459..109767338,11	MCF-7	breast:
2	chr6:109747081..109748999-chr6:109749255..109751645,2	MCF-7	breast:
3	chr6:109747606..109750215-chr6:109758639..109760987,2	K562	blood:
4	chr6:109740450..109742532-chr6:109747741..109750415,2	MCF-7	breast:
5	chr6:109744870..109747846-chr6:109748398..109750532,2	K562	blood:
6	chr6:109747606..109757389-chr6:109757828..109761794,11	K562	blood:

Variant related genes	Relation type
ENSG00000135587	Chromatin interaction
ENSG00000185250	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11753645	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11757877	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12524502	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12528566	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12528712	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13192476	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13195517	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13199519	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13203252	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1322818	0.80[AMR][1000 genomes]
rs2275652	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34131679	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34292461	0.80[AMR][1000 genomes]
rs34320275	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34533653	0.80[AMR][1000 genomes]
rs35452836	0.81[EUR][1000 genomes]
rs35969918	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3757238	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3799835	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3799840	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4428538	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs61076041	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61233650	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67857472	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6929208	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs61318425	MICAL1	Cis_1M	lymphoblastoid	RTeQTL
rs61318425	RP11-425D10.10	cis	Skin Sun Exposed Lower leg	GTEx
rs61318425	RP11-425D10.10	cis	Esophagus Mucosa	GTEx
rs61318425	SMPD2	cis	Whole Blood	GTEx
rs61318425	ZBTB24	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109707000-109755400	Weak transcription	Fetal Intestine Small	intestine
2	chr6:109721200-109760600	Weak transcription	Fetal Brain Female	brain
3	chr6:109724400-109750400	Weak transcription	Ovary	ovary
4	chr6:109725800-109760800	Weak transcription	Brain Anterior Caudate	brain
5	chr6:109735200-109750200	Weak transcription	Fetal Muscle Leg	muscle
6	chr6:109735600-109750000	Weak transcription	Brain Hippocampus Middle	brain
7	chr6:109736600-109760800	Weak transcription	Brain Angular Gyrus	brain
8	chr6:109737400-109750200	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr6:109740400-109754800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr6:109745600-109760800	Weak transcription	Gastric	stomach
11	chr6:109745800-109750800	Weak transcription	Left Ventricle	heart
12	chr6:109746000-109750200	Weak transcription	Adipose Nuclei	Adipose
13	chr6:109746000-109753400	Weak transcription	Pancreas	Pancrea
14	chr6:109746200-109750000	Weak transcription	Stomach Mucosa	stomach
15	chr6:109746400-109750200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr6:109746400-109750200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr6:109746400-109750600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr6:109746400-109750600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr6:109746400-109750600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr6:109746600-109749000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr6:109746600-109750200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr6:109746600-109750400	Weak transcription	Osteobl	bone
23	chr6:109746600-109750800	Weak transcription	NHEK	skin
24	chr6:109746800-109750200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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