Variant report

Variant	rs4682662
Chromosome Location	chr3:134035007-134035008
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:134024378..134037377-chr3:134063304..134080412,83	MCF-7	breast:
2	chr3:134024307..134037207-chr3:134080573..134100993,88	MCF-7	breast:
3	chr3:134033082..134035437-chr3:134182333..134184840,3	MCF-7	breast:
4	chr3:134034717..134037202-chr3:134054056..134056170,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000260633	Chromatin interaction
ENSG00000214289	Chromatin interaction
ENSG00000114019	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10935112	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.87[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4269060	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6786265	0.87[MEX][hapmap]
rs9843732	0.87[MEX][hapmap]
rs9849839	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9854720	0.83[GIH][hapmap];0.93[MKK][hapmap];0.87[YRI][hapmap]

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	esv3522171	chr3:133889405-134156571	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	esv3522172	chr3:133889405-134156571	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4682662	NMNAT3	cis	cerebellum	SCAN
rs4682662	TF	cis	cerebellum	SCAN

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:134030000-134037200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:134032800-134035200	Enhancers	Brain Hippocampus Middle	brain
3	chr3:134033000-134035200	Enhancers	Stomach Mucosa	stomach
4	chr3:134033000-134035400	Enhancers	HMEC	breast
5	chr3:134033000-134037200	Enhancers	HSMM	muscle
6	chr3:134033200-134035400	Enhancers	HSMMtube	muscle
7	chr3:134033200-134037400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr3:134033400-134037200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr3:134033400-134037200	Enhancers	Muscle Satellite Cultured Cells	--
10	chr3:134033400-134037200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr3:134033400-134037600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr3:134033400-134037600	Enhancers	NHEK	skin
13	chr3:134033600-134036800	Enhancers	NHLF	lung
14	chr3:134033600-134037200	Enhancers	NHDF-Ad	bronchial
15	chr3:134034000-134037000	Enhancers	Adipose Nuclei	Adipose
16	chr3:134034000-134039400	Weak transcription	Gastric	stomach
17	chr3:134034200-134035200	Enhancers	Stomach Smooth Muscle	stomach
18	chr3:134034200-134035400	Enhancers	Skeletal Muscle Male	skeletal muscle
19	chr3:134034200-134037200	Enhancers	A549	lung
20	chr3:134034200-134037600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr3:134034400-134035200	Enhancers	ES-I3 Cell Line	embryonic stem cell
22	chr3:134034600-134046200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr3:134034800-134035800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
24	chr3:134034800-134035800	Weak transcription	Placenta	Placenta
25	chr3:134034800-134036000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr3:134034800-134036000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr3:134034800-134036000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr3:134034800-134036000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr3:134034800-134036000	Weak transcription	Aorta	Aorta
30	chr3:134034800-134036000	Weak transcription	Esophagus	oesophagus
31	chr3:134034800-134036000	Weak transcription	Lung	lung
32	chr3:134034800-134036400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr3:134034800-134036800	Enhancers	HUVEC	blood vessel
34	chr3:134034800-134037000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr3:134034800-134037200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr3:134034800-134037600	Enhancers	Osteobl	bone
37	chr3:134034800-134041600	Weak transcription	Pancreas	Pancrea
38	chr3:134034800-134043200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr3:134034800-134044200	Weak transcription	Right Ventricle	heart
40	chr3:134035000-134036000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr3:134035000-134036000	Weak transcription	Fetal Muscle Trunk	muscle
42	chr3:134035000-134036000	Weak transcription	Placenta Amnion	Placenta Amnion
43	chr3:134035000-134036000	Weak transcription	Right Atrium	heart
44	chr3:134035000-134036200	Weak transcription	Fetal Muscle Leg	muscle
45	chr3:134035000-134036200	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr3:134035000-134037000	Enhancers	NH-A	brain
47	chr3:134035000-134039400	Weak transcription	HUES64 Cell Line	embryonic stem cell
48	chr3:134035000-134041200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
49	chr3:134035000-134044000	Weak transcription	Fetal Heart	heart
50	chr3:134035000-134044200	Weak transcription	HUES6 Cell Line	embryonic stem cell

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