Variant report

Variant	rs73236104
Chromosome Location	chr4:55990954-55990955
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KDR-3	chr4:55988831-55992348	ucscGeneNc_uc003hay_2

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10012589	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10012701	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10013070	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10013228	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10020668	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10026340	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10517343	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12331471	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12331538	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12331597	0.95[ASN][1000 genomes]
rs12498317	0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs12505096	0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1350545	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1380068	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1551641	0.95[ASN][1000 genomes]
rs1551642	0.95[ASN][1000 genomes]
rs1551643	0.95[ASN][1000 genomes]
rs1551644	0.95[ASN][1000 genomes]
rs1551645	0.95[ASN][1000 genomes]
rs17711225	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17711320	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17773813	0.94[ASN][1000 genomes]
rs1903068	0.94[ASN][1000 genomes]
rs2239702	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28411232	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28517654	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28584303	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28680424	0.86[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs28838369	0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs36146043	0.95[ASN][1000 genomes]
rs36190491	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs41408948	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73236106	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73236109	0.94[ASN][1000 genomes]
rs9284955	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9312655	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9312656	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9312657	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9312658	0.94[ASN][1000 genomes]
rs9992737	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9998950	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv526344	chr4:55522488-56231119	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv829939	chr4:55856771-56005011	Enhancers Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:55986800-55991000	Flanking Active TSS	HUVEC	blood vessel
2	chr4:55986800-55991400	Active TSS	Right Atrium	heart
3	chr4:55988000-55992400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr4:55988000-55992400	Active TSS	Pancreatic Islets	Pancreatic Islet
5	chr4:55988600-55992600	Active TSS	H9 Cell Line	embryonic stem cell
6	chr4:55989000-55991000	Active TSS	Right Ventricle	heart
7	chr4:55989400-55992400	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
8	chr4:55989800-55992200	Bivalent/Poised TSS	Fetal Intestine Large	intestine
9	chr4:55989800-55992800	Bivalent/Poised TSS	Fetal Kidney	kidney
10	chr4:55990000-55991000	Bivalent/Poised TSS	Fetal Lung	lung
11	chr4:55990000-55991200	Active TSS	Lung	lung
12	chr4:55990000-55991400	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr4:55990000-55991600	Bivalent/Poised TSS	Adipose Nuclei	Adipose
14	chr4:55990000-55992400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
15	chr4:55990000-55992400	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr4:55990000-55992400	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr4:55990200-55991000	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
18	chr4:55990200-55991000	Bivalent/Poised TSS	Placenta	Placenta
19	chr4:55990200-55991200	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
20	chr4:55990200-55992400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr4:55990200-55992400	Bivalent/Poised TSS	Skeletal Muscle Female	skeletal muscle
22	chr4:55990200-55992600	Bivalent/Poised TSS	Ovary	ovary
23	chr4:55990400-55991000	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
24	chr4:55990400-55991000	Bivalent/Poised TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr4:55990400-55991200	Active TSS	Rectal Mucosa Donor 29	rectum
26	chr4:55990400-55991600	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr4:55990400-55991800	Bivalent/Poised TSS	Liver	Liver
28	chr4:55990400-55992200	Bivalent/Poised TSS	Fetal Intestine Small	intestine
29	chr4:55990400-55992400	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
30	chr4:55990400-55992400	Bivalent/Poised TSS	Left Ventricle	heart
31	chr4:55990600-55991000	Bivalent/Poised TSS	Esophagus	oesophagus
32	chr4:55990600-55991200	Bivalent Enhancer	Fetal Heart	heart
33	chr4:55990600-55991400	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr4:55990600-55991400	Bivalent/Poised TSS	Sigmoid Colon	Sigmoid Colon
35	chr4:55990600-55991400	Bivalent/Poised TSS	Stomach Smooth Muscle	stomach
36	chr4:55990600-55991800	Flanking Bivalent TSS/Enh	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr4:55990600-55992200	Active TSS	Brain Cingulate Gyrus	brain
38	chr4:55990600-55992200	Bivalent/Poised TSS	Duodenum Mucosa	Duodenum
39	chr4:55990600-55992400	Bivalent/Poised TSS	Brain Angular Gyrus	brain
40	chr4:55990600-55992400	Active TSS	Brain Substantia Nigra	brain
41	chr4:55990600-55992400	Bivalent/Poised TSS	Skeletal Muscle Male	skeletal muscle
42	chr4:55990600-55992600	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
43	chr4:55990600-55992600	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
44	chr4:55990600-55992600	Bivalent/Poised TSS	Brain Dorsolateral Prefrontal Cortex	brain
45	chr4:55990800-55991000	Flanking Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr4:55990800-55991000	Enhancers	Breast Myoepithelial Primary Cells	Breast
47	chr4:55990800-55991000	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr4:55990800-55991000	Flanking Active TSS	Brain Hippocampus Middle	brain
49	chr4:55990800-55991000	Bivalent/Poised TSS	Fetal Brain Female	brain
50	chr4:55990800-55991000	Flanking Active TSS	Placenta Amnion	Placenta Amnion

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links