Variant report

Variant	rs6825364
Chromosome Location	chr4:54340881-54340882
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:54340192..54342016-chr4:54343724..54345508,2	K562	blood:
2	chr4:54340153..54341692-chr4:54343827..54345508,2	K562	blood:

Extended variants
information (count: 91 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:90)

rs_ID	r²[population]
rs10000746	0.81[EUR][1000 genomes]
rs10001201	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10005424	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10007903	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10011259	0.81[EUR][1000 genomes]
rs10011394	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10017903	0.81[EUR][1000 genomes]
rs10021541	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10028142	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10032903	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1021099	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11133276	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11722866	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11723755	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11725230	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11731499	0.81[EUR][1000 genomes]
rs11734039	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11734681	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11947256	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12507563	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12507739	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12508701	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12511088	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12511253	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12642403	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12649718	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13150384	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1471597	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1481819	0.81[EUR][1000 genomes]
rs1481824	0.81[EUR][1000 genomes]
rs1531748	0.81[EUR][1000 genomes]
rs17082782	0.85[EUR][1000 genomes]
rs17082893	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17082923	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17520800	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2090117	0.85[EUR][1000 genomes]
rs2271554	0.81[EUR][1000 genomes]
rs2271558	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2271559	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2412447	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2412488	0.86[EUR][1000 genomes]
rs28414913	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28459503	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35089837	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35499169	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35978987	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs36011216	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3765158	0.86[EUR][1000 genomes]
rs3811782	0.81[EUR][1000 genomes]
rs3811785	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4864759	0.81[EUR][1000 genomes]
rs4864760	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4864767	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56998298	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57297394	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6554100	0.81[EUR][1000 genomes]
rs6554104	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6554105	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6554106	0.81[EUR][1000 genomes]
rs6818788	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6822201	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6827269	0.86[EUR][1000 genomes]
rs6828559	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6832626	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6833442	0.89[AFR][1000 genomes]
rs6833766	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6834934	0.81[EUR][1000 genomes]
rs6838260	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6839922	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6840343	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6840530	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6843529	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6848887	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6857024	0.81[EUR][1000 genomes]
rs7655975	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7682199	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7686177	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7686876	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7688853	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7689981	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7690908	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7691578	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7691892	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7697622	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7698792	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs931181	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs931182	0.81[EUR][1000 genomes]
rs9312639	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9995284	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9996883	0.85[EUR][1000 genomes];0.92[ASN][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	nsv516916	chr4:54331706-54341346	Weak transcription ZNF genes & repeats Strong transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:54320000-54342000	Weak transcription	Pancreas	Pancrea
2	chr4:54320000-54353200	Weak transcription	Gastric	stomach
3	chr4:54321400-54341800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr4:54327600-54347800	Weak transcription	Fetal Muscle Trunk	muscle
5	chr4:54327800-54341800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr4:54327800-54362200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr4:54328200-54362000	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr4:54328400-54362000	Weak transcription	Brain Angular Gyrus	brain
9	chr4:54329600-54341600	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr4:54329600-54341800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr4:54329600-54342000	Weak transcription	NH-A	brain
12	chr4:54329600-54351000	Weak transcription	Adipose Nuclei	Adipose
13	chr4:54329600-54373600	Weak transcription	Brain Germinal Matrix	brain
14	chr4:54329800-54341600	Weak transcription	NHDF-Ad	bronchial
15	chr4:54329800-54374000	Weak transcription	Left Ventricle	heart
16	chr4:54330200-54341800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr4:54332000-54341800	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr4:54332000-54342400	Weak transcription	HSMM	muscle
19	chr4:54333000-54342800	Weak transcription	Esophagus	oesophagus
20	chr4:54333000-54363600	Weak transcription	Aorta	Aorta
21	chr4:54333000-54374800	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr4:54333600-54342600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr4:54333600-54342800	Weak transcription	Fetal Stomach	stomach
24	chr4:54336400-54342800	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr4:54338000-54341400	Weak transcription	HUES64 Cell Line	embryonic stem cell
26	chr4:54338400-54347400	Weak transcription	Fetal Muscle Leg	muscle
27	chr4:54339200-54341200	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr4:54339200-54343400	Strong transcription	Liver	Liver
29	chr4:54339400-54342400	Strong transcription	Placenta	Placenta
30	chr4:54339400-54343200	Strong transcription	Fetal Intestine Large	intestine
31	chr4:54339800-54342800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr4:54340200-54343200	Strong transcription	Duodenum Mucosa	Duodenum
33	chr4:54340400-54341600	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr4:54340400-54343400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr4:54340600-54341800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr4:54340600-54342000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr4:54340600-54343200	Strong transcription	Fetal Intestine Small	intestine
38	chr4:54340800-54341000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr4:54340800-54342000	Weak transcription	Fetal Brain Female	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links