Variant report

Variant	rs6440027
Chromosome Location	chr3:141378407-141378408
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:141376839..141379290-chr3:141593720..141595646,2	MCF-7	breast:
2	chr3:141286560..141289498-chr3:141377973..141379933,2	MCF-7	breast:
3	chr3:141361177..141363053-chr3:141377745..141380110,2	MCF-7	breast:
4	chr3:141377266..141379551-chr3:141385595..141387849,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000069849	Chromatin interaction

Extended variants
information (count: 4 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs13089727	0.81[ASN][1000 genomes]
rs13096539	0.81[ASN][1000 genomes]
rs7650897	0.82[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	nsv949709	chr3:141295050-142178144	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141377600-141379400	Active TSS	Aorta	Aorta
2	chr3:141377600-141379600	Active TSS	Colon Smooth Muscle	Colon
3	chr3:141377600-141379600	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
4	chr3:141377600-141379800	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
5	chr3:141377600-141379800	Active TSS	Rectal Smooth Muscle	rectum
6	chr3:141377800-141378600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr3:141377800-141378800	Enhancers	Fetal Heart	heart
8	chr3:141378000-141378600	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
9	chr3:141378000-141378600	Enhancers	Fetal Kidney	kidney
10	chr3:141378000-141378600	Bivalent Enhancer	Fetal Muscle Leg	muscle
11	chr3:141378000-141378600	Bivalent/Poised TSS	Stomach Smooth Muscle	stomach
12	chr3:141378000-141379000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr3:141378000-141379400	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
14	chr3:141378000-141379400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr3:141378000-141380000	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
16	chr3:141378200-141378600	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr3:141378200-141378600	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr3:141378200-141378600	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
19	chr3:141378200-141378600	Bivalent/Poised TSS	Muscle Satellite Cultured Cells	--
20	chr3:141378200-141378600	Bivalent/Poised TSS	Colonic Mucosa	Colon
21	chr3:141378200-141378600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
22	chr3:141378200-141378600	Enhancers	Pancreas	Pancrea
23	chr3:141378200-141378600	Flanking Bivalent TSS/Enh	HepG2	liver
24	chr3:141378200-141378800	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
25	chr3:141378200-141378800	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
26	chr3:141378200-141378800	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
27	chr3:141378200-141379000	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
28	chr3:141378200-141379000	Flanking Bivalent TSS/Enh	Placenta	Placenta
29	chr3:141378200-141379400	Active TSS	Brain Substantia Nigra	brain
30	chr3:141378200-141379600	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
31	chr3:141378200-141379600	Flanking Bivalent TSS/Enh	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr3:141378200-141379600	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
33	chr3:141378200-141379600	Active TSS	Pancreatic Islets	Pancreatic Islet
34	chr3:141378200-141379600	Flanking Bivalent TSS/Enh	Monocytes-CD14+_RO01746	blood
35	chr3:141378200-141379600	Bivalent/Poised TSS	NHDF-Ad	bronchial
36	chr3:141378200-141379800	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
37	chr3:141378200-141379800	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr3:141378200-141380200	Active TSS	Brain Anterior Caudate	brain
39	chr3:141378400-141378600	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
40	chr3:141378400-141378600	Bivalent/Poised TSS	iPS DF 19.11 Cell Line	embryonic stem cell
41	chr3:141378400-141378600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr3:141378400-141378600	Bivalent/Poised TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr3:141378400-141378600	Enhancers	Adipose Nuclei	Adipose
44	chr3:141378400-141378600	Enhancers	Liver	Liver
45	chr3:141378400-141378600	Flanking Active TSS	Brain Hippocampus Middle	brain
46	chr3:141378400-141378600	Bivalent/Poised TSS	Duodenum Mucosa	Duodenum
47	chr3:141378400-141378600	Flanking Bivalent TSS/Enh	Fetal Brain Male	brain
48	chr3:141378400-141378600	Bivalent/Poised TSS	Fetal Brain Female	brain
49	chr3:141378400-141378600	Enhancers	Gastric	stomach
50	chr3:141378400-141378600	Enhancers	Lung	lung

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