Variant report

Variant	rs16892040
Chromosome Location	chr4:15490238-15490239
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:15479756..15482166-chr4:15489455..15493787,3	MCF-7	breast:
2	chr4:15484757..15487117-chr4:15489258..15491846,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000048342	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11722737	0.89[ASN][1000 genomes]
rs11728225	0.89[ASN][1000 genomes]
rs11728800	0.89[ASN][1000 genomes]
rs12500458	0.82[CHB][hapmap];0.89[ASN][1000 genomes]
rs13118306	0.91[ASN][1000 genomes]
rs13131700	0.82[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs3087622	0.89[ASN][1000 genomes]
rs34465372	0.89[ASN][1000 genomes]
rs4698387	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3448986	chr4:14928802-15805558	Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	esv2757923	chr4:15444617-15749520	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv2759227	chr4:15444617-15749520	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:15481600-15498600	Weak transcription	Liver	Liver
2	chr4:15481600-15519000	Weak transcription	Gastric	stomach
3	chr4:15482000-15491000	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr4:15482000-15491800	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr4:15482200-15490400	Weak transcription	A549	lung
6	chr4:15482200-15519800	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr4:15482600-15516600	Weak transcription	Brain Angular Gyrus	brain
8	chr4:15482600-15526400	Weak transcription	HMEC	breast
9	chr4:15482800-15518200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr4:15483600-15493400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr4:15483600-15498600	Weak transcription	Rectal Smooth Muscle	rectum
12	chr4:15485000-15504800	Weak transcription	Ovary	ovary
13	chr4:15485200-15494400	Weak transcription	Fetal Heart	heart
14	chr4:15486600-15499800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr4:15487200-15498800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr4:15487400-15570400	Weak transcription	Psoas Muscle	Psoas
17	chr4:15488600-15491000	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr4:15488800-15492200	ZNF genes & repeats	Fetal Lung	lung
19	chr4:15489600-15490400	ZNF genes & repeats	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr4:15489800-15491000	ZNF genes & repeats	Fetal Muscle Leg	muscle
21	chr4:15489800-15493000	Strong transcription	Stomach Smooth Muscle	stomach
22	chr4:15490000-15490400	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr4:15490000-15490400	ZNF genes & repeats	Fetal Kidney	kidney
24	chr4:15490000-15490600	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr4:15490000-15490600	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr4:15490000-15490600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr4:15490000-15491000	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
28	chr4:15490000-15491200	Genic enhancers	Osteobl	bone
29	chr4:15490000-15491600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
30	chr4:15490200-15490400	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr4:15490200-15490400	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr4:15490200-15490400	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr4:15490200-15490400	ZNF genes & repeats	Esophagus	oesophagus
34	chr4:15490200-15490400	ZNF genes & repeats	Pancreas	Pancrea
35	chr4:15490200-15490600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr4:15490200-15490600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr4:15490200-15490600	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
38	chr4:15490200-15490600	ZNF genes & repeats	Aorta	Aorta
39	chr4:15490200-15490600	ZNF genes & repeats	Fetal Brain Female	brain
40	chr4:15490200-15490600	ZNF genes & repeats	Fetal Stomach	stomach
41	chr4:15490200-15490600	ZNF genes & repeats	Left Ventricle	heart
42	chr4:15490200-15490600	ZNF genes & repeats	Lung	lung
43	chr4:15490200-15490600	Flanking Active TSS	NHLF	lung
44	chr4:15490200-15490800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr4:15490200-15490800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr4:15490200-15490800	ZNF genes & repeats	Colon Smooth Muscle	Colon
47	chr4:15490200-15491000	Enhancers	Muscle Satellite Cultured Cells	--
48	chr4:15490200-15491000	ZNF genes & repeats	Fetal Intestine Small	intestine
49	chr4:15490200-15491600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr4:15490200-15491600	Strong transcription	Fetal Muscle Trunk	muscle

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