Variant report

Variant	rs938960
Chromosome Location	chr3:61559125-61559126
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:61556565..61559490-chr3:61559531..61561160,2	MCF-7	breast:
2	chr3:61546018..61548873-chr3:61556262..61559991,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000144724	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11709537	0.83[EUR][1000 genomes]
rs28393212	0.81[EUR][1000 genomes]
rs6445225	0.81[EUR][1000 genomes]
rs73093091	0.80[EUR][1000 genomes]
rs73093101	0.82[EUR][1000 genomes]
rs9828525	0.86[EUR][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	nsv432423	chr3:61100255-61606060	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv834711	chr3:61413762-61612539	Flanking Active TSS Enhancers Genic enhancers Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv1008615	chr3:61455419-61679037	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:61550600-61568600	Weak transcription	Pancreas	Pancrea
2	chr3:61550800-61574200	Weak transcription	Fetal Muscle Trunk	muscle
3	chr3:61551000-61559800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:61551000-61559800	Weak transcription	NHEK	skin
5	chr3:61551000-61561600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr3:61551200-61560000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr3:61551600-61559800	Weak transcription	NHLF	lung
8	chr3:61551600-61563800	Weak transcription	Rectal Smooth Muscle	rectum
9	chr3:61552200-61563400	Weak transcription	Colon Smooth Muscle	Colon
10	chr3:61553400-61559800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr3:61553600-61566400	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr3:61555400-61560000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr3:61555600-61560200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr3:61555800-61559800	Enhancers	Osteobl	bone
15	chr3:61556200-61559800	Weak transcription	Fetal Lung	lung
16	chr3:61556200-61564000	Weak transcription	HepG2	liver
17	chr3:61556600-61560800	Enhancers	H1 Cell Line	embryonic stem cell
18	chr3:61556800-61559200	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr3:61556800-61560600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr3:61556800-61561000	Enhancers	Right Ventricle	heart
21	chr3:61557000-61559200	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr3:61557000-61561600	Weak transcription	Ovary	ovary
23	chr3:61557400-61561000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr3:61557600-61559200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr3:61557600-61559600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr3:61557600-61561000	Enhancers	Psoas Muscle	Psoas
27	chr3:61557800-61559600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
28	chr3:61557800-61559800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr3:61557800-61559800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr3:61557800-61560000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr3:61557800-61560600	Weak transcription	HMEC	breast
32	chr3:61557800-61560800	Enhancers	iPS-18 Cell Line	embryonic stem cell
33	chr3:61557800-61561600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
34	chr3:61557800-61561800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
35	chr3:61558000-61559200	Weak transcription	NHDF-Ad	bronchial
36	chr3:61558000-61563800	Weak transcription	Adipose Nuclei	Adipose
37	chr3:61558000-61564000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr3:61558200-61559200	Weak transcription	Muscle Satellite Cultured Cells	--
39	chr3:61558200-61559800	Enhancers	Fetal Heart	heart
40	chr3:61558200-61560200	Weak transcription	NH-A	brain
41	chr3:61558200-61563800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr3:61558400-61560000	Weak transcription	Fetal Muscle Leg	muscle
43	chr3:61558400-61579800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr3:61558600-61559800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr3:61558600-61559800	Weak transcription	Lung	lung
46	chr3:61558600-61560800	Enhancers	H9 Cell Line	embryonic stem cell
47	chr3:61558800-61559600	Weak transcription	HSMM	muscle
48	chr3:61558800-61559800	Strong transcription	HUES6 Cell Line	embryonic stem cell
49	chr3:61558800-61559800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
50	chr3:61558800-61559800	Weak transcription	Left Ventricle	heart

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