Variant report

Variant	rs62253721
Chromosome Location	chr3:24267082-24267083
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	chr3:24258383..24262308-chr3:24263138..24268304,6	K562	blood:
2	chr3:23958230..23959847-chr3:24266678..24268323,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000174748	Chromatin interaction
ENSG00000197885	Chromatin interaction

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

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

rs_ID	r²[population]
rs73037699	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73037700	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73039603	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[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	nsv533980	chr3:23445901-24311972	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24239000-24268200	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr3:24251400-24279200	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr3:24252400-24276400	Weak transcription	HepG2	liver
4	chr3:24255000-24268000	Weak transcription	Brain Anterior Caudate	brain
5	chr3:24257400-24274000	Weak transcription	Pancreas	Pancrea
6	chr3:24262000-24268600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr3:24262200-24283200	Weak transcription	Fetal Stomach	stomach
8	chr3:24262600-24268600	Weak transcription	Lung	lung
9	chr3:24262600-24283200	Weak transcription	Left Ventricle	heart
10	chr3:24263000-24283000	Weak transcription	Brain Cingulate Gyrus	brain
11	chr3:24263200-24273800	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr3:24264000-24275400	Weak transcription	Psoas Muscle	Psoas
13	chr3:24264600-24270600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr3:24264600-24276800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr3:24264800-24268000	Weak transcription	Fetal Intestine Large	intestine
16	chr3:24264800-24268000	Weak transcription	Fetal Intestine Small	intestine
17	chr3:24264800-24268600	Weak transcription	Liver	Liver
18	chr3:24264800-24271000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr3:24264800-24276400	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr3:24265800-24267200	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr3:24265800-24267400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr3:24265800-24268200	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr3:24265800-24268400	Enhancers	Rectal Smooth Muscle	rectum
24	chr3:24265800-24268800	Enhancers	Fetal Lung	lung
25	chr3:24266000-24267200	Enhancers	iPS-20b Cell Line	embryonic stem cell
26	chr3:24266000-24267200	Enhancers	GM12878-XiMat	blood
27	chr3:24266000-24267400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr3:24266000-24268200	Enhancers	Colon Smooth Muscle	Colon
29	chr3:24266000-24273600	Weak transcription	Gastric	stomach
30	chr3:24266200-24267200	Enhancers	iPS-18 Cell Line	embryonic stem cell
31	chr3:24266200-24267200	Enhancers	Primary hematopoietic stem cells	blood
32	chr3:24266200-24268000	Enhancers	iPS-15b Cell Line	embryonic stem cell
33	chr3:24266400-24267200	Enhancers	Brain Substantia Nigra	brain
34	chr3:24266400-24267400	Enhancers	HMEC	breast
35	chr3:24266400-24268400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr3:24266400-24268800	Enhancers	Duodenum Smooth Muscle	Duodenum
37	chr3:24266600-24267200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr3:24266600-24267200	Enhancers	Skeletal Muscle Female	skeletal muscle
39	chr3:24266600-24267400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr3:24266600-24268200	Enhancers	Stomach Mucosa	stomach
41	chr3:24266800-24268200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr3:24266800-24268600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr3:24267000-24267200	Enhancers	NHLF	lung
44	chr3:24267000-24268200	Enhancers	Stomach Smooth Muscle	stomach
45	chr3:24267000-24268600	Weak transcription	Adipose Nuclei	Adipose
46	chr3:24267000-24271200	Weak transcription	Aorta	Aorta
47	chr3:24267000-24279000	Weak transcription	Brain Angular Gyrus	brain
48	chr3:24267000-24283000	Weak transcription	Brain Inferior Temporal Lobe	brain
49	chr3:24267000-24283800	Weak transcription	HUES48 Cell Line	embryonic stem cell

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