Variant report

Variant	rs10428221
Chromosome Location	chr3:56820318-56820319
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	chr3:56817895..56820572-chr3:56821053..56822921,2	K562	blood:
2	chr3:56817648..56820572-chr3:56821053..56824731,3	K562	blood:

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

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10428123	1.00[CEU][hapmap];0.83[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs4681841	0.91[CEU][hapmap];0.80[EUR][1000 genomes]
rs7642971	0.93[EUR][1000 genomes]
rs9825091	1.00[CEU][hapmap]
rs9825368	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs9871950	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9876300	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9883458	0.90[EUR][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	nsv876818	chr3:56805376-56924711	Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56807000-56833200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:56810000-56822200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr3:56814600-56826800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
4	chr3:56814800-56826600	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr3:56815600-56820800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
6	chr3:56815600-56823400	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr3:56815800-56820800	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr3:56815800-56824200	Enhancers	Fetal Heart	heart
9	chr3:56816000-56825400	Enhancers	Primary B cells from peripheral blood	blood
10	chr3:56816200-56820800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr3:56816200-56827000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
12	chr3:56816600-56823200	Enhancers	Brain Germinal Matrix	brain
13	chr3:56817000-56823600	Enhancers	Brain Cingulate Gyrus	brain
14	chr3:56817600-56820800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr3:56818000-56827000	Enhancers	Primary hematopoietic stem cells short term culture	blood
16	chr3:56818200-56821200	Enhancers	Fetal Brain Male	brain
17	chr3:56818200-56826800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr3:56818200-56829400	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr3:56818400-56821400	Weak transcription	Adipose Nuclei	Adipose
20	chr3:56818400-56822000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr3:56818600-56821200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
22	chr3:56818600-56821200	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
23	chr3:56818600-56821200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr3:56818600-56821800	Weak transcription	Fetal Stomach	stomach
25	chr3:56818600-56822200	Weak transcription	Esophagus	oesophagus
26	chr3:56818600-56824000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
27	chr3:56818600-56824200	Enhancers	Primary T cells from cord blood	blood
28	chr3:56818600-56826200	Enhancers	Primary T helper cells fromperipheralblood	blood
29	chr3:56818600-56829000	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr3:56818600-56832000	Weak transcription	Rectal Smooth Muscle	rectum
31	chr3:56818800-56821200	Enhancers	Primary T helper naive cells from peripheral blood	blood
32	chr3:56818800-56821400	Weak transcription	Small Intestine	intestine
33	chr3:56818800-56822200	Weak transcription	Colonic Mucosa	Colon
34	chr3:56818800-56822200	Weak transcription	Colon Smooth Muscle	Colon
35	chr3:56818800-56822200	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr3:56818800-56822600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr3:56819000-56821200	Weak transcription	Fetal Lung	lung
38	chr3:56819000-56829000	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr3:56819000-56830400	Weak transcription	HSMM	muscle
40	chr3:56819200-56820400	Weak transcription	Brain Anterior Caudate	brain
41	chr3:56819200-56821200	Weak transcription	Primary neutrophils fromperipheralblood	blood
42	chr3:56819200-56821200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr3:56819200-56821400	Enhancers	GM12878-XiMat	blood
44	chr3:56819200-56822600	Weak transcription	Stomach Mucosa	stomach
45	chr3:56819200-56824200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
46	chr3:56819200-56824400	Weak transcription	Gastric	stomach
47	chr3:56819200-56834400	Weak transcription	Fetal Muscle Trunk	muscle
48	chr3:56819400-56820400	Weak transcription	Brain Angular Gyrus	brain
49	chr3:56819400-56820400	Weak transcription	Brain Substantia Nigra	brain
50	chr3:56819400-56820600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links