Variant report

Variant	rs575846452
Chromosome Location	chr20:24630730-24630731
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:15)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:15 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr20:24448836..24451309-chr20:24629831..24631551,2	MCF-7	breast:
2	chr20:24630307..24631279-chr20:24640279..24641332,14	MCF-7	breast:
3	chr20:24237902..24238701-chr20:24630250..24631153,4	MCF-7	breast:
4	chr20:24630363..24631077-chr20:30628301..30629231,2	MCF-7	breast:
5	chr20:24630261..24631279-chr20:24640264..24641332,21	MCF-7	breast:
6	chr20:24630442..24631150-chr20:24777044..24777861,2	MCF-7	breast:
7	chr20:24629904..24632760-chr20:24759535..24761078,2	MCF-7	breast:
8	chr20:24629731..24632578-chr20:24657556..24659618,3	MCF-7	breast:
9	chr20:24612466..24614630-chr20:24629800..24632618,2	MCF-7	breast:
10	chr20:24630253..24631426-chr20:24640312..24641216,7	MCF-7	breast:
11	chr20:24630371..24631127-chr20:24753147..24753931,3	MCF-7	breast:
12	chr20:24629448..24631960-chr20:24674530..24677062,2	MCF-7	breast:
13	chr20:24630419..24630929-chr20:24722844..24723588,2	MCF-7	breast:
14	chr20:24237874..24238722-chr20:24630391..24631249,3	MCF-7	breast:
15	chr20:24630391..24631212-chr20:24752974..24753906,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000101463	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv9793	chr20:23939613-24734850	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	esv3332519	chr20:24535099-24815615	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv912824	chr20:24612808-24639916	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
4	nsv1061412	chr20:24629468-24887869	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv544216	chr20:24629468-24887869	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24615400-24633800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr20:24616200-24639600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr20:24620000-24641200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr20:24625600-24633800	Weak transcription	Spleen	Spleen
5	chr20:24628000-24633600	Enhancers	Fetal Brain Male	brain
6	chr20:24628600-24630800	Enhancers	Brain Substantia Nigra	brain
7	chr20:24628600-24631000	Enhancers	Brain Hippocampus Middle	brain
8	chr20:24628600-24631600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr20:24628600-24631800	Weak transcription	HMEC	breast
10	chr20:24628800-24631000	Enhancers	Primary B cells from peripheral blood	blood
11	chr20:24629000-24633600	Enhancers	NHLF	lung
12	chr20:24629200-24631000	Enhancers	GM12878-XiMat	blood
13	chr20:24629200-24634600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr20:24629200-24642600	Weak transcription	Right Atrium	heart
15	chr20:24629400-24630800	Weak transcription	Fetal Muscle Leg	muscle
16	chr20:24629400-24632600	Enhancers	Fetal Brain Female	brain
17	chr20:24629400-24641000	Weak transcription	Right Ventricle	heart
18	chr20:24629600-24631000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr20:24630000-24631000	Enhancers	Brain Inferior Temporal Lobe	brain
20	chr20:24630000-24631800	Enhancers	Fetal Stomach	stomach
21	chr20:24630200-24631000	Enhancers	Brain Angular Gyrus	brain
22	chr20:24630200-24631400	Enhancers	Colon Smooth Muscle	Colon
23	chr20:24630200-24631600	Enhancers	Fetal Lung	lung
24	chr20:24630200-24631600	Enhancers	Ovary	ovary
25	chr20:24630200-24631600	Enhancers	HSMMtube	muscle
26	chr20:24630200-24634600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr20:24630200-24634800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr20:24630400-24630800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
29	chr20:24630400-24631200	Enhancers	Brain Anterior Caudate	brain
30	chr20:24630400-24631600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr20:24630400-24633600	Enhancers	Placenta	Placenta
32	chr20:24630600-24630800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr20:24630600-24630800	Enhancers	Fetal Muscle Trunk	muscle
34	chr20:24630600-24630800	Flanking Active TSS	Stomach Smooth Muscle	stomach
35	chr20:24630600-24631200	Enhancers	Brain Cingulate Gyrus	brain
36	chr20:24630600-24631400	Enhancers	Rectal Smooth Muscle	rectum
37	chr20:24630600-24631400	Flanking Active TSS	Osteobl	bone
38	chr20:24630600-24632000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr20:24630600-24632200	Enhancers	HSMM	muscle
40	chr20:24630600-24632200	Enhancers	NHDF-Ad	bronchial
41	chr20:24630600-24632800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr20:24630600-24633800	Enhancers	A549	lung
43	chr20:24630600-24634400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr20:24630600-24634600	Enhancers	Muscle Satellite Cultured Cells	--
45	chr20:24630600-24634600	Enhancers	NH-A	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links