Variant report

Variant	rs153920
Chromosome Location	chr5:14748556-14748557
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10080009	0.87[CEU][hapmap];0.81[TSI][hapmap]
rs13170282	0.91[CHB][hapmap];0.86[CHD][hapmap];0.92[JPT][hapmap];0.98[ASN][1000 genomes]
rs13182007	0.95[ASN][1000 genomes]
rs149391	0.87[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.83[JPT][hapmap];0.89[MEX][hapmap];0.94[TSI][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs149554	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs152364	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs153927	0.91[CHB][hapmap];0.83[JPT][hapmap];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs153928	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs153929	0.91[CHB][hapmap];0.83[JPT][hapmap];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs153930	0.91[CHB][hapmap];0.83[JPT][hapmap];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs153931	0.86[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs153932	0.90[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.81[TSI][hapmap];0.90[ASN][1000 genomes]
rs153933	0.91[CHB][hapmap];0.92[YRI][hapmap];0.90[ASN][1000 genomes]
rs1679140	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16903680	0.90[CHB][hapmap];0.92[ASN][1000 genomes]
rs16903681	0.91[CHB][hapmap];0.86[CHD][hapmap];0.92[ASN][1000 genomes]
rs16903693	0.84[CHB][hapmap]
rs1697124	0.90[CEU][hapmap]
rs192218	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2288474	0.91[CHB][hapmap];0.86[CHD][hapmap];0.83[JPT][hapmap];0.89[ASN][1000 genomes]
rs34106421	0.94[ASN][1000 genomes]
rs35628922	0.98[ASN][1000 genomes]
rs35971379	0.95[ASN][1000 genomes]
rs4702046	0.94[ASN][1000 genomes]
rs4702047	0.84[ASW][hapmap];0.87[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.83[MEX][hapmap];0.87[MKK][hapmap];0.94[TSI][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4702048	0.82[CHB][hapmap];0.83[JPT][hapmap];0.88[ASN][1000 genomes]
rs6864641	1.00[ASW][hapmap];0.87[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.90[LWK][hapmap];0.83[MEX][hapmap];0.90[MKK][hapmap];0.94[TSI][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6895129	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs696035	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs696294	0.86[CHD][hapmap];0.93[GIH][hapmap]
rs696295	0.87[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs697566	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs697567	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs697568	0.87[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.83[JPT][hapmap];0.89[MEX][hapmap];0.94[TSI][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs697569	0.87[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.94[TSI][hapmap];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs697571	0.92[GIH][hapmap]
rs7734375	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs875525	1.00[ASW][hapmap];0.87[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.83[JPT][hapmap];0.87[LWK][hapmap];0.89[MEX][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs891051	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]

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	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
2	nsv1018187	chr5:14385164-15127103	Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	esv2756652	chr5:14745268-14750481	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:14725400-14758600	Weak transcription	Primary hematopoietic stem cells	blood
2	chr5:14727200-14757000	Weak transcription	NHLF	lung
3	chr5:14729200-14791000	Weak transcription	Small Intestine	intestine
4	chr5:14729600-14752600	Strong transcription	Fetal Intestine Large	intestine
5	chr5:14729800-14749400	Strong transcription	Fetal Intestine Small	intestine
6	chr5:14730000-14758400	Strong transcription	Rectal Mucosa Donor 29	rectum
7	chr5:14733400-14750600	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr5:14733400-14753000	Weak transcription	Fetal Brain Male	brain
9	chr5:14736600-14752200	Strong transcription	Stomach Smooth Muscle	stomach
10	chr5:14736600-14760000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr5:14736800-14752800	Weak transcription	A549	lung
12	chr5:14736800-14753800	Strong transcription	Rectal Mucosa Donor 31	rectum
13	chr5:14736800-14757400	Strong transcription	Duodenum Mucosa	Duodenum
14	chr5:14737000-14754200	Strong transcription	Liver	Liver
15	chr5:14737800-14759200	Strong transcription	Primary T helper cells PMA-I stimulated	--
16	chr5:14737800-14759400	Strong transcription	Primary T helper cells fromperipheralblood	blood
17	chr5:14738200-14749400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr5:14739600-14749200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr5:14739600-14753800	Strong transcription	Sigmoid Colon	Sigmoid Colon
20	chr5:14739800-14751200	Strong transcription	Duodenum Smooth Muscle	Duodenum
21	chr5:14740800-14748800	Weak transcription	NHEK	skin
22	chr5:14740800-14751400	Strong transcription	Adipose Nuclei	Adipose
23	chr5:14740800-14755200	Weak transcription	NHDF-Ad	bronchial
24	chr5:14741000-14749400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr5:14741000-14752000	Weak transcription	Fetal Lung	lung
26	chr5:14741600-14753800	Weak transcription	Colon Smooth Muscle	Colon
27	chr5:14741600-14767800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
28	chr5:14741800-14750400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr5:14742000-14749800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr5:14742000-14751600	Genic enhancers	Skeletal Muscle Female	skeletal muscle
31	chr5:14742400-14748800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr5:14742400-14752600	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr5:14742800-14756600	Strong transcription	Primary T cells fromperipheralblood	blood
34	chr5:14742800-14758400	Strong transcription	Primary T cells from cord blood	blood
35	chr5:14743000-14756800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr5:14744200-14757400	Strong transcription	Dnd41	blood
37	chr5:14744600-14749000	Strong transcription	Fetal Stomach	stomach
38	chr5:14744600-14751000	Strong transcription	Fetal Brain Female	brain
39	chr5:14744600-14758600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr5:14744600-14761800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr5:14744600-14775800	Weak transcription	NH-A	brain
42	chr5:14744800-14749000	Strong transcription	Colonic Mucosa	Colon
43	chr5:14744800-14751000	Strong transcription	Brain Germinal Matrix	brain
44	chr5:14744800-14751400	Strong transcription	Brain Anterior Caudate	brain
45	chr5:14744800-14757200	Weak transcription	HUVEC	blood vessel
46	chr5:14744800-14776000	Weak transcription	Muscle Satellite Cultured Cells	--
47	chr5:14745000-14754600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr5:14745000-14756200	Strong transcription	Osteobl	bone
49	chr5:14745200-14749000	Strong transcription	Right Ventricle	heart
50	chr5:14745200-14749400	Weak transcription	HMEC	breast

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