Variant report

Variant	rs13406282
Chromosome Location	chr2:20797886-20797887
allele	C/T
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:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:20644797..20655251-chr2:20787626..20802274,53	MCF-7	breast:
2	chr2:20674239..20675822-chr2:20797261..20800126,2	MCF-7	breast:
3	chr2:20790810..20793188-chr2:20795452..20798408,2	MCF-7	breast:
4	chr2:20785117..20787518-chr2:20797517..20799254,2	MCF-7	breast:
5	chr2:20793781..20795387-chr2:20795652..20798532,2	K562	blood:
6	chr2:20794523..20801165-chr2:20801395..20807064,11	K562	blood:
7	chr2:20644186..20651576-chr2:20790196..20799394,18	MCF-7	breast:
8	chr2:20674472..20676562-chr2:20797774..20800276,2	MCF-7	breast:
9	chr2:20790477..20793225-chr2:20796841..20798820,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000233416	Chromatin interaction
ENSG00000143878	Chromatin interaction
ENSG00000228950	Chromatin interaction
ENSG00000269976	Chromatin interaction
ENSG00000231948	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10153731	1.00[AMR][1000 genomes]
rs10190590	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10204567	1.00[AMR][1000 genomes]
rs10204809	1.00[AMR][1000 genomes]
rs12328527	1.00[AMR][1000 genomes]
rs13418218	1.00[AMR][1000 genomes]
rs16987861	1.00[AMR][1000 genomes]
rs28666627	1.00[AMR][1000 genomes]
rs9808086	1.00[AMR][1000 genomes]

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	nsv833537	chr2:20630092-20826816	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
2	nsv833548	chr2:20682073-20864078	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Genic enhancers 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	32 gene(s)	inside rSNPs	diseases
3	nsv1012037	chr2:20770850-20824893	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
4	nsv535598	chr2:20770850-20824893	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
5	nsv581167	chr2:20791125-20827846	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:20787200-20800200	Enhancers	Right Ventricle	heart
2	chr2:20789000-20798200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr2:20789200-20800400	Enhancers	Placenta	Placenta
4	chr2:20790800-20801200	Enhancers	Adipose Nuclei	Adipose
5	chr2:20791800-20800400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr2:20792000-20798200	Enhancers	Muscle Satellite Cultured Cells	--
7	chr2:20792200-20798200	Enhancers	Ovary	ovary
8	chr2:20792400-20798400	Enhancers	Skeletal Muscle Female	skeletal muscle
9	chr2:20792400-20800200	Enhancers	Right Atrium	heart
10	chr2:20792800-20798200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr2:20792800-20801800	Enhancers	HUVEC	blood vessel
12	chr2:20793000-20799000	Enhancers	Skeletal Muscle Male	skeletal muscle
13	chr2:20793000-20800400	Enhancers	Left Ventricle	heart
14	chr2:20793000-20801200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr2:20793800-20801400	Enhancers	Brain Angular Gyrus	brain
16	chr2:20794200-20798000	Enhancers	Brain Inferior Temporal Lobe	brain
17	chr2:20794200-20800000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
18	chr2:20794600-20798200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr2:20794600-20800200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr2:20794800-20798200	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr2:20794800-20801200	Enhancers	Brain Anterior Caudate	brain
22	chr2:20794800-20801200	Enhancers	Brain Substantia Nigra	brain
23	chr2:20795000-20801200	Enhancers	Brain Cingulate Gyrus	brain
24	chr2:20795000-20801600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr2:20795000-20802000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr2:20795200-20798000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr2:20795200-20798000	Enhancers	Rectal Mucosa Donor 29	rectum
28	chr2:20795200-20799800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr2:20795400-20799800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr2:20795600-20798000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
31	chr2:20795600-20798000	Enhancers	Fetal Muscle Leg	muscle
32	chr2:20795600-20798200	Enhancers	Small Intestine	intestine
33	chr2:20795600-20799000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr2:20795600-20800000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr2:20795600-20800200	Enhancers	Fetal Muscle Trunk	muscle
36	chr2:20795600-20800200	Enhancers	Stomach Smooth Muscle	stomach
37	chr2:20795800-20799000	Weak transcription	Esophagus	oesophagus
38	chr2:20795800-20799800	Enhancers	Fetal Intestine Small	intestine
39	chr2:20795800-20801000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
40	chr2:20796000-20800000	Enhancers	Fetal Brain Male	brain
41	chr2:20796000-20802400	Weak transcription	NHEK	skin
42	chr2:20796200-20798000	Flanking Active TSS	HepG2	liver
43	chr2:20796200-20804200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr2:20796400-20798200	Enhancers	Rectal Mucosa Donor 31	rectum
45	chr2:20796400-20798800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
46	chr2:20796400-20798800	Weak transcription	HMEC	breast
47	chr2:20796600-20799800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
48	chr2:20796600-20804400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr2:20796800-20800600	Enhancers	Liver	Liver
50	chr2:20797000-20798400	Weak transcription	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links