Variant report

Variant	rs11207853
Chromosome Location	chr1:62351799-62351800
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10889259	1.00[AFR][1000 genomes]
rs10889260	1.00[AFR][1000 genomes]
rs10889264	1.00[AFR][1000 genomes]
rs2498986	1.00[AFR][1000 genomes]
rs2498990	1.00[AFR][1000 genomes]
rs2498993	1.00[AFR][1000 genomes]
rs4915600	1.00[AFR][1000 genomes]
rs6656711	1.00[AFR][1000 genomes]
rs6696674	1.00[AFR][1000 genomes]
rs7512340	1.00[AFR][1000 genomes]
rs7522779	1.00[AFR][1000 genomes]
rs7536831	1.00[AFR][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	esv3693319	chr1:62207254-62402549	Bivalent/Poised TSS Strong transcription Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv830004	chr1:62242944-62382228	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
3	nsv518627	chr1:62279594-62517947	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv522020	chr1:62279594-62517947	Active TSS ZNF genes & repeats Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv531876	chr1:62302313-62504349	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	5 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	chr1:62228600-62391800	Weak transcription	Small Intestine	intestine
2	chr1:62312800-62353200	Weak transcription	Colon Smooth Muscle	Colon
3	chr1:62316200-62352200	Weak transcription	Brain Anterior Caudate	brain
4	chr1:62317800-62390400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr1:62319000-62373800	Weak transcription	Brain Angular Gyrus	brain
6	chr1:62320800-62353200	Weak transcription	A549	lung
7	chr1:62321600-62353200	Weak transcription	Adipose Nuclei	Adipose
8	chr1:62323800-62355200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr1:62324400-62361000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr1:62325000-62357400	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr1:62330400-62361000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr1:62331600-62371800	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr1:62331800-62352400	Weak transcription	Left Ventricle	heart
14	chr1:62331800-62384200	Weak transcription	Gastric	stomach
15	chr1:62336000-62408600	Weak transcription	Pancreas	Pancrea
16	chr1:62336200-62362400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr1:62336400-62352000	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr1:62336400-62360200	Weak transcription	Primary B cells from peripheral blood	blood
19	chr1:62336600-62380000	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr1:62336800-62356400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr1:62337600-62352800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr1:62339800-62353000	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr1:62339800-62353000	Weak transcription	Fetal Stomach	stomach
24	chr1:62339800-62353200	Weak transcription	Psoas Muscle	Psoas
25	chr1:62339800-62353400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr1:62339800-62356800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr1:62339800-62361200	Weak transcription	Lung	lung
28	chr1:62340400-62399200	Weak transcription	Primary hematopoietic stem cells	blood
29	chr1:62341400-62361000	Weak transcription	Brain Substantia Nigra	brain
30	chr1:62342400-62358400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr1:62342600-62353200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr1:62342600-62361000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
33	chr1:62343800-62352800	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr1:62344000-62362200	Weak transcription	Right Ventricle	heart
35	chr1:62344400-62367000	Weak transcription	Colonic Mucosa	Colon
36	chr1:62346000-62353400	Strong transcription	HUES64 Cell Line	embryonic stem cell
37	chr1:62346000-62389400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
38	chr1:62346200-62417600	Weak transcription	Rectal Smooth Muscle	rectum
39	chr1:62346400-62352800	Weak transcription	Fetal Heart	heart
40	chr1:62346800-62358800	Weak transcription	Brain Hippocampus Middle	brain
41	chr1:62348000-62352200	Strong transcription	HUES48 Cell Line	embryonic stem cell
42	chr1:62348200-62360600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr1:62348600-62352800	Weak transcription	Aorta	Aorta
44	chr1:62348600-62361000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr1:62349400-62352200	Weak transcription	Fetal Intestine Small	intestine
46	chr1:62349800-62352400	Strong transcription	HUES6 Cell Line	embryonic stem cell
47	chr1:62350200-62397600	Weak transcription	Esophagus	oesophagus
48	chr1:62350400-62361000	Weak transcription	H1 Cell Line	embryonic stem cell
49	chr1:62350600-62351800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
50	chr1:62350600-62352800	Weak transcription	Fetal Kidney	kidney

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links