Variant report

Variant	rs154161
Chromosome Location	chr5:14356028-14356029
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs154150	0.85[CEU][hapmap]
rs154152	0.89[EUR][1000 genomes]
rs154153	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs154154	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs154155	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs154159	1.00[ASN][1000 genomes]
rs165083	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1664507	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16903338	0.85[CEU][hapmap]
rs247134	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs247139	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs247140	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs247142	1.00[CEU][hapmap];0.85[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs247143	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs247144	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs256416	0.84[ASN][1000 genomes]
rs256417	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs256423	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs30623	0.85[JPT][hapmap]
rs30624	0.85[JPT][hapmap]
rs30769	0.89[EUR][1000 genomes]
rs30770	0.89[EUR][1000 genomes]
rs30771	0.88[EUR][1000 genomes]
rs30782	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs30783	0.95[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs30784	0.95[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs30792	0.84[CEU][hapmap];0.87[CHB][hapmap];0.83[JPT][hapmap];0.88[EUR][1000 genomes]
rs39857	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs39866	0.96[ASN][1000 genomes]
rs409214	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs415341	0.88[EUR][1000 genomes]
rs42204	0.82[EUR][1000 genomes]
rs42259	0.90[CEU][hapmap];0.87[CHB][hapmap];0.83[JPT][hapmap];0.88[EUR][1000 genomes]
rs42405	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs42407	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs42551	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7700787	0.80[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948355	chr5:14160447-14395478	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv1026914	chr5:14237782-14751588	Weak transcription Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv830210	chr5:14255039-14431552	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:14335000-14360600	Weak transcription	Psoas Muscle	Psoas
2	chr5:14338000-14357200	Weak transcription	Colonic Mucosa	Colon
3	chr5:14338400-14358000	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr5:14338800-14357600	Weak transcription	Esophagus	oesophagus
5	chr5:14339200-14357600	Weak transcription	Gastric	stomach
6	chr5:14339200-14358000	Weak transcription	Thymus	Thymus
7	chr5:14339200-14358200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr5:14339400-14358400	Weak transcription	Fetal Thymus	thymus
9	chr5:14341400-14359400	Weak transcription	Primary T cells from cord blood	blood
10	chr5:14341600-14357400	Weak transcription	Brain Cingulate Gyrus	brain
11	chr5:14342600-14357200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr5:14342600-14358200	Weak transcription	Pancreas	Pancrea
13	chr5:14342800-14357200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr5:14342800-14357200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr5:14342800-14365200	Weak transcription	Small Intestine	intestine
16	chr5:14343200-14358800	Weak transcription	Brain Hippocampus Middle	brain
17	chr5:14343400-14357000	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr5:14343600-14357000	Weak transcription	Brain Angular Gyrus	brain
19	chr5:14343600-14357600	Weak transcription	Brain Anterior Caudate	brain
20	chr5:14343800-14362400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr5:14344400-14358000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr5:14347000-14356400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr5:14347000-14358800	Weak transcription	Fetal Lung	lung
24	chr5:14347200-14356600	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr5:14347200-14357400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr5:14348400-14357400	Weak transcription	Placenta	Placenta
27	chr5:14348400-14357400	Weak transcription	Rectal Smooth Muscle	rectum
28	chr5:14348600-14359800	Weak transcription	Pancreatic Islets	Pancreatic Islet
29	chr5:14348800-14357000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr5:14348800-14358600	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr5:14349000-14358200	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr5:14349200-14356800	Weak transcription	Spleen	Spleen
33	chr5:14349200-14357200	Weak transcription	HUES48 Cell Line	embryonic stem cell
34	chr5:14349400-14357600	Weak transcription	Aorta	Aorta
35	chr5:14349400-14360000	Weak transcription	Fetal Kidney	kidney
36	chr5:14349600-14356400	Weak transcription	NHEK	skin
37	chr5:14350400-14356800	Weak transcription	HepG2	liver
38	chr5:14350400-14357000	Weak transcription	Brain Germinal Matrix	brain
39	chr5:14350400-14358800	Weak transcription	HMEC	breast
40	chr5:14350400-14373800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr5:14351000-14357000	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr5:14351000-14357600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr5:14351200-14357000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
44	chr5:14351400-14357200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr5:14351600-14399400	Weak transcription	Primary neutrophils fromperipheralblood	blood
46	chr5:14352000-14357000	Weak transcription	Fetal Brain Female	brain
47	chr5:14352000-14357200	Weak transcription	Primary hematopoietic stem cells	blood
48	chr5:14352200-14357000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr5:14352200-14358200	Weak transcription	Skeletal Muscle Female	skeletal muscle
50	chr5:14352400-14356800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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