Variant report

Variant	rs153930
Chromosome Location	chr5:14742986-14742987
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10036729	0.90[CEU][hapmap]
rs10052744	0.95[CEU][hapmap]
rs13170282	1.00[CHB][hapmap];0.92[JPT][hapmap];0.95[ASN][1000 genomes]
rs13182007	0.98[ASN][1000 genomes]
rs149391	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs149554	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs152363	0.81[CHB][hapmap]
rs152364	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs153920	0.91[CHB][hapmap];0.83[JPT][hapmap];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs153921	1.00[CEU][hapmap]
rs153923	0.90[CEU][hapmap]
rs153924	0.90[CEU][hapmap]
rs153926	1.00[CEU][hapmap]
rs153927	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs153928	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs153929	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs153931	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs153932	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs153933	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1679140	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16903680	1.00[CHB][hapmap];0.85[JPT][hapmap];0.98[ASN][1000 genomes]
rs16903681	1.00[CHB][hapmap];0.92[JPT][hapmap];0.98[ASN][1000 genomes]
rs16903692	0.81[CHB][hapmap]
rs16903693	0.86[CHB][hapmap]
rs17250963	0.95[CEU][hapmap]
rs187483	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs192218	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2288474	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs34106421	1.00[ASN][1000 genomes]
rs35628922	0.95[ASN][1000 genomes]
rs35825720	0.81[ASN][1000 genomes]
rs35971379	0.98[ASN][1000 genomes]
rs35976559	0.81[ASN][1000 genomes]
rs4702046	1.00[ASN][1000 genomes]
rs4702047	1.00[CHB][hapmap];0.92[JPT][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4702048	0.91[CHB][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs6864641	1.00[CHB][hapmap];0.92[JPT][hapmap];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6895129	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs696035	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs696294	0.86[CEU][hapmap];0.81[CHB][hapmap];0.83[JPT][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs696295	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs697565	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs697566	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs697567	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs697568	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs697569	1.00[CHB][hapmap];0.92[JPT][hapmap];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs697571	0.95[CEU][hapmap]
rs697572	0.90[CEU][hapmap]
rs7734375	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs875525	0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs891051	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[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	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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:14715000-14744200	Weak transcription	GM12878-XiMat	blood
2	chr5:14725400-14758600	Weak transcription	Primary hematopoietic stem cells	blood
3	chr5:14725800-14745400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr5:14727000-14745600	Weak transcription	Placenta	Placenta
5	chr5:14727200-14748000	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr5:14727200-14757000	Weak transcription	NHLF	lung
7	chr5:14728000-14743600	Weak transcription	HSMMtube	muscle
8	chr5:14728000-14745000	Weak transcription	Primary B cells from peripheral blood	blood
9	chr5:14728800-14745600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr5:14729200-14791000	Weak transcription	Small Intestine	intestine
11	chr5:14729600-14752600	Strong transcription	Fetal Intestine Large	intestine
12	chr5:14729800-14749400	Strong transcription	Fetal Intestine Small	intestine
13	chr5:14730000-14758400	Strong transcription	Rectal Mucosa Donor 29	rectum
14	chr5:14733000-14744000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr5:14733400-14750600	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr5:14733400-14753000	Weak transcription	Fetal Brain Male	brain
17	chr5:14736400-14746200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr5:14736600-14752200	Strong transcription	Stomach Smooth Muscle	stomach
19	chr5:14736600-14760000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr5:14736800-14752800	Weak transcription	A549	lung
21	chr5:14736800-14753800	Strong transcription	Rectal Mucosa Donor 31	rectum
22	chr5:14736800-14757400	Strong transcription	Duodenum Mucosa	Duodenum
23	chr5:14737000-14744800	Weak transcription	Pancreas	Pancrea
24	chr5:14737000-14754200	Strong transcription	Liver	Liver
25	chr5:14737800-14744400	Weak transcription	Spleen	Spleen
26	chr5:14737800-14744600	Strong transcription	Hela-S3	cervix
27	chr5:14737800-14759200	Strong transcription	Primary T helper cells PMA-I stimulated	--
28	chr5:14737800-14759400	Strong transcription	Primary T helper cells fromperipheralblood	blood
29	chr5:14738200-14745400	Weak transcription	Rectal Smooth Muscle	rectum
30	chr5:14738200-14746200	Weak transcription	Aorta	Aorta
31	chr5:14738200-14749400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
32	chr5:14739000-14743400	Strong transcription	Primary T killer memory cells from peripheral blood	blood
33	chr5:14739000-14743800	Genic enhancers	Brain Substantia Nigra	brain
34	chr5:14739600-14749200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr5:14739600-14753800	Strong transcription	Sigmoid Colon	Sigmoid Colon
36	chr5:14739800-14743800	Enhancers	iPS-18 Cell Line	embryonic stem cell
37	chr5:14739800-14751200	Strong transcription	Duodenum Smooth Muscle	Duodenum
38	chr5:14740200-14743000	Enhancers	H1 Cell Line	embryonic stem cell
39	chr5:14740200-14743000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
40	chr5:14740200-14743000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr5:14740200-14743000	Strong transcription	Gastric	stomach
42	chr5:14740200-14743200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr5:14740200-14746200	Strong transcription	Esophagus	oesophagus
44	chr5:14740200-14746800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr5:14740400-14743600	Strong transcription	Fetal Stomach	stomach
46	chr5:14740600-14743800	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr5:14740600-14744000	Weak transcription	HSMM	muscle
48	chr5:14740800-14743200	Weak transcription	NH-A	brain
49	chr5:14740800-14743400	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr5:14740800-14743400	Weak transcription	HUVEC	blood vessel

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