Variant report

Variant	rs28413131
Chromosome Location	chr21:15646553-15646554
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr21:15646421..15649560-chr21:15654356..15655933,3	K562	blood:
2	chr21:15645251..15647400-chr21:15754351..15756122,2	K562	blood:

Variant related genes	Relation type
ENSG00000155304	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11701767	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2110153	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2236001	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2822520	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2822521	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2822523	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs452794	0.83[ASN][1000 genomes]
rs62230076	0.94[ASN][1000 genomes]
rs718670	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs718671	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs718672	0.91[ASN][1000 genomes]
rs718673	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73163620	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9305276	0.87[ASN][1000 genomes]
rs9808686	0.85[ASN][1000 genomes]
rs9975020	0.87[ASN][1000 genomes]
rs9979345	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869466	chr21:15482572-15683385	Active TSS Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv520538	chr21:15615220-15660539	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1062532	chr21:15616629-15654501	Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1067478	chr21:15616629-15657107	Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1062862	chr21:15620391-15649232	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1062500	chr21:15620391-15657107	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv915906	chr21:15620908-15651744	Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv544374	chr21:15624517-15656011	Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv1066930	chr21:15626232-15724630	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv459095	chr21:15626660-15698808	Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv587044	chr21:15626660-15698808	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
12	nsv470878	chr21:15630812-15698808	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:15645800-15647000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
2	chr21:15645800-15647400	Active TSS	Rectal Mucosa Donor 29	rectum
3	chr21:15646000-15646600	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
4	chr21:15646000-15646600	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
5	chr21:15646000-15646600	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr21:15646000-15646600	Bivalent/Poised TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr21:15646000-15646600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr21:15646000-15646600	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr21:15646000-15646600	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
10	chr21:15646000-15646600	Flanking Bivalent TSS/Enh	Adipose Nuclei	Adipose
11	chr21:15646000-15646600	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
12	chr21:15646000-15646600	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
13	chr21:15646000-15646600	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
14	chr21:15646000-15646600	Flanking Bivalent TSS/Enh	Placenta	Placenta
15	chr21:15646000-15646600	Flanking Active TSS	Pancreas	Pancrea
16	chr21:15646000-15646600	Active TSS	Right Atrium	heart
17	chr21:15646000-15646600	Bivalent/Poised TSS	HepG2	liver
18	chr21:15646000-15646600	Flanking Active TSS	K562	blood
19	chr21:15646000-15646800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
20	chr21:15646000-15646800	Bivalent/Poised TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr21:15646000-15646800	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
22	chr21:15646000-15646800	Flanking Active TSS	Brain Hippocampus Middle	brain
23	chr21:15646000-15646800	Active TSS	Colonic Mucosa	Colon
24	chr21:15646000-15646800	Active TSS	Fetal Intestine Large	intestine
25	chr21:15646000-15646800	Flanking Active TSS	Lung	lung
26	chr21:15646000-15648600	Active TSS	Rectal Mucosa Donor 31	rectum
27	chr21:15646200-15646600	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
28	chr21:15646200-15646600	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
29	chr21:15646200-15646600	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
30	chr21:15646200-15646600	Active TSS	Breast Myoepithelial Primary Cells	Breast
31	chr21:15646200-15646600	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr21:15646200-15646600	Bivalent/Poised TSS	Brain Cingulate Gyrus	brain
33	chr21:15646200-15646600	Active TSS	Brain Substantia Nigra	brain
34	chr21:15646200-15646600	Active TSS	Duodenum Mucosa	Duodenum
35	chr21:15646200-15646600	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
36	chr21:15646200-15646600	Flanking Active TSS	Gastric	stomach
37	chr21:15646200-15646600	Bivalent Enhancer	Ovary	ovary
38	chr21:15646200-15646600	Active TSS	Sigmoid Colon	Sigmoid Colon
39	chr21:15646200-15646600	Active TSS	Skeletal Muscle Female	skeletal muscle
40	chr21:15646200-15646600	Flanking Bivalent TSS/Enh	Monocytes-CD14+_RO01746	blood
41	chr21:15646200-15646800	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr21:15646200-15646800	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
43	chr21:15646200-15646800	Active TSS	Primary hematopoietic stem cells	blood
44	chr21:15646200-15646800	Bivalent/Poised TSS	Brain Angular Gyrus	brain
45	chr21:15646200-15646800	Bivalent/Poised TSS	Brain Anterior Caudate	brain
46	chr21:15646200-15646800	Active TSS	Fetal Intestine Small	intestine
47	chr21:15646200-15646800	Bivalent Enhancer	Stomach Mucosa	stomach
48	chr21:15646200-15647000	Enhancers	Spleen	Spleen
49	chr21:15646400-15646600	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr21:15646400-15646600	Active TSS	Brain Inferior Temporal Lobe	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links