Variant report

Variant	rs1389748
Chromosome Location	chr1:220952359-220952360
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11118603	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11557506	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12023202	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12023249	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12026176	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12030190	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12030249	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12030434	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12030456	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12031479	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12031951	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12032336	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12033644	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12033645	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12033732	0.83[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12034685	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12039436	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1389745	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1389746	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1389747	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17008667	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17008670	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17008680	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1982894	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1982895	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2067632	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2067633	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3767324	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3902885	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72472398	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72473905	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72473913	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs746767	1.00[AMR][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	nsv523389	chr1:220926844-220956012	Genic enhancers Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:220922800-220959600	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr1:220922800-220959600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr1:220925000-220959400	Weak transcription	Brain Angular Gyrus	brain
4	chr1:220930000-220959600	Weak transcription	Psoas Muscle	Psoas
5	chr1:220930400-220959600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr1:220931200-220959000	Weak transcription	Brain Substantia Nigra	brain
7	chr1:220936200-220959600	Weak transcription	A549	lung
8	chr1:220936600-220958200	Weak transcription	Esophagus	oesophagus
9	chr1:220939000-220960400	Weak transcription	Small Intestine	intestine
10	chr1:220943000-220958400	Weak transcription	HepG2	liver
11	chr1:220943000-220959000	Strong transcription	Fetal Intestine Large	intestine
12	chr1:220944200-220956000	Weak transcription	Pancreas	Pancrea
13	chr1:220944200-220959200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr1:220944200-220959400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr1:220944200-220959400	Weak transcription	Fetal Kidney	kidney
16	chr1:220944200-220959600	Weak transcription	NHLF	lung
17	chr1:220944200-220959800	Weak transcription	Gastric	stomach
18	chr1:220944400-220954600	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr1:220944400-220956000	Weak transcription	Aorta	Aorta
20	chr1:220944400-220956800	Weak transcription	Spleen	Spleen
21	chr1:220944400-220958800	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr1:220944400-220959000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr1:220944400-220959200	Weak transcription	Rectal Smooth Muscle	rectum
24	chr1:220944400-220959400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr1:220944400-220959400	Weak transcription	Colonic Mucosa	Colon
26	chr1:220944400-220959400	Weak transcription	Right Ventricle	heart
27	chr1:220945600-220953200	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr1:220945800-220959200	Weak transcription	Colon Smooth Muscle	Colon
29	chr1:220946000-220956800	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr1:220946400-220953400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr1:220946400-220956200	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr1:220946600-220958600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr1:220946800-220958800	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr1:220947800-220952600	Weak transcription	Stomach Smooth Muscle	stomach
35	chr1:220948400-220953200	Weak transcription	Adipose Nuclei	Adipose
36	chr1:220949800-220954200	Strong transcription	Fetal Intestine Small	intestine
37	chr1:220950000-220953600	Strong transcription	Fetal Muscle Leg	muscle
38	chr1:220950200-220957800	Strong transcription	Duodenum Mucosa	Duodenum
39	chr1:220950200-220959200	Weak transcription	Brain Cingulate Gyrus	brain
40	chr1:220950400-220953000	Enhancers	Primary B cells from cord blood	blood
41	chr1:220950400-220953800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr1:220950400-220958000	Strong transcription	Fetal Muscle Trunk	muscle
43	chr1:220950400-220959400	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr1:220950600-220952400	Strong transcription	Fetal Stomach	stomach
45	chr1:220950600-220953200	Strong transcription	Lung	lung
46	chr1:220950600-220954400	Weak transcription	HUES48 Cell Line	embryonic stem cell
47	chr1:220950600-220958000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
48	chr1:220950600-220958800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
49	chr1:220950600-220959000	Weak transcription	Fetal Heart	heart
50	chr1:220950600-220959400	Weak transcription	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links