Variant report

Variant	rs4587164
Chromosome Location	chr6:34376703-34376704
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:34214488..34218598-chr6:34376198..34378970,4	K562	blood:
2	chr6:34376410..34378113-chr6:34392082..34393924,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000270800	Chromatin interaction
ENSG00000186577	Chromatin interaction
ENSG00000124614	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs12664016	0.90[AFR][1000 genomes]
rs1811968	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2006833	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs206919	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs206920	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs206921	0.80[EUR][1000 genomes]
rs206924	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs206936	0.83[EUR][1000 genomes]
rs206941	0.83[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs206942	0.84[AFR][1000 genomes]
rs28847046	0.89[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs3798556	0.81[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs3798560	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3913009	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3913010	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs410340	0.83[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs414739	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs458576	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs464553	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6457773	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6907486	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs6912971	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6924482	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6924982	0.82[EUR][1000 genomes]
rs6925243	0.85[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs6930978	0.82[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs7757586	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7757900	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7765498	0.80[EUR][1000 genomes]
rs7773447	0.84[AMR][1000 genomes]
rs7775635	0.87[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs9366856	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9368810	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9368813	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9380433	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9380435	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9394214	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9394215	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9394218	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9461981	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9469775	0.81[EUR][1000 genomes]
rs9469778	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9469779	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9469780	0.81[AMR][1000 genomes];0.84[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	nsv1022844	chr6:34317219-35060519	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv538195	chr6:34317219-35060519	Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4587164	NUDT3	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34361000-34384800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr6:34361200-34382400	Weak transcription	Pancreas	Pancrea
3	chr6:34361200-34384800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr6:34361400-34378600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr6:34361800-34382400	Weak transcription	Fetal Intestine Small	intestine
6	chr6:34362200-34382000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr6:34367400-34379800	Weak transcription	HepG2	liver
8	chr6:34370000-34383400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr6:34371000-34378200	Weak transcription	A549	lung
10	chr6:34371200-34378400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr6:34371200-34383400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr6:34371400-34384000	Weak transcription	Right Ventricle	heart
13	chr6:34372400-34379000	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr6:34372400-34389400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr6:34373000-34382400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr6:34373600-34377000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr6:34374000-34379200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr6:34375200-34382400	Weak transcription	K562	blood
19	chr6:34375200-34383600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr6:34375400-34379800	Weak transcription	Brain Cingulate Gyrus	brain
21	chr6:34375400-34380000	Weak transcription	Thymus	Thymus
22	chr6:34375600-34383600	Weak transcription	Fetal Brain Female	brain
23	chr6:34375800-34382000	Weak transcription	Dnd41	blood
24	chr6:34376600-34378400	Weak transcription	Fetal Stomach	stomach
25	chr6:34376600-34382600	Weak transcription	Stomach Smooth Muscle	stomach

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