Variant report

Variant	rs3805499
Chromosome Location	chr5:40729201-40729202
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:39572949..39575707-chr5:40729196..40731982,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10035235	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs10042459	0.88[ASN][1000 genomes]
rs10053664	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs10062565	0.84[JPT][hapmap]
rs10066459	1.00[JPT][hapmap]
rs10069737	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1015027	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10941525	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11747210	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs12517210	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs12518018	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12520058	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12523329	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs1363847	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs17835256	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2194204	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2270625	0.84[JPT][hapmap]
rs2291782	0.84[JPT][hapmap]
rs3792824	0.90[CEU][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs3792827	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3805489	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs3805490	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap]
rs3805492	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[EUR][1000 genomes]
rs3805494	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[EUR][1000 genomes]
rs3805498	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3816959	0.84[JPT][hapmap]
rs4957334	1.00[JPT][hapmap]
rs4957343	0.80[ASN][1000 genomes]
rs4957347	0.90[ASN][1000 genomes]
rs56752286	0.97[ASN][1000 genomes]
rs62356508	0.83[ASN][1000 genomes]
rs6868112	0.84[JPT][hapmap]
rs72747952	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72747958	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7719692	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7721093	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7725810	0.84[JPT][hapmap]

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:40692400-40741200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr5:40692800-40733800	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr5:40692800-40735000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr5:40709600-40745000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr5:40712800-40741200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr5:40713200-40740600	Weak transcription	Right Ventricle	heart
7	chr5:40713600-40734800	Weak transcription	Hela-S3	cervix
8	chr5:40714600-40739400	Weak transcription	GM12878-XiMat	blood
9	chr5:40715400-40733600	Weak transcription	Fetal Heart	heart
10	chr5:40715400-40739400	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr5:40715600-40734800	Weak transcription	NHEK	skin
12	chr5:40716400-40733200	Weak transcription	HUVEC	blood vessel
13	chr5:40716400-40733600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr5:40716400-40733800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr5:40717600-40733600	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr5:40717800-40733600	Weak transcription	Brain Substantia Nigra	brain
17	chr5:40717800-40733600	Weak transcription	NHDF-Ad	bronchial
18	chr5:40717800-40734400	Weak transcription	NH-A	brain
19	chr5:40720000-40733600	Weak transcription	Fetal Kidney	kidney
20	chr5:40721200-40733800	Weak transcription	Psoas Muscle	Psoas
21	chr5:40721200-40739600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr5:40721400-40735000	Weak transcription	Small Intestine	intestine
23	chr5:40721400-40739600	Weak transcription	Placenta	Placenta
24	chr5:40721400-40741400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr5:40721600-40733600	Weak transcription	Brain Angular Gyrus	brain
26	chr5:40721600-40733800	Weak transcription	Stomach Smooth Muscle	stomach
27	chr5:40721600-40736000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr5:40721800-40731200	Weak transcription	Colon Smooth Muscle	Colon
29	chr5:40721800-40733600	Weak transcription	Brain Cingulate Gyrus	brain
30	chr5:40721800-40733800	Weak transcription	Rectal Smooth Muscle	rectum
31	chr5:40721800-40735800	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr5:40721800-40738800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr5:40721800-40739000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr5:40721800-40740600	Weak transcription	Fetal Brain Male	brain
35	chr5:40722200-40739400	Weak transcription	Primary B cells from cord blood	blood
36	chr5:40722400-40733600	Weak transcription	Brain Hippocampus Middle	brain
37	chr5:40722800-40733600	Weak transcription	Fetal Muscle Leg	muscle
38	chr5:40722800-40733600	Weak transcription	Gastric	stomach
39	chr5:40722800-40733600	Weak transcription	Pancreas	Pancrea
40	chr5:40722800-40735000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr5:40722800-40735000	Weak transcription	Esophagus	oesophagus
42	chr5:40722800-40735000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr5:40722800-40739200	Weak transcription	Fetal Brain Female	brain
44	chr5:40722800-40741400	Weak transcription	Aorta	Aorta
45	chr5:40722800-40755200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr5:40723000-40741600	Weak transcription	Lung	lung
47	chr5:40723800-40735000	Weak transcription	K562	blood
48	chr5:40724200-40740600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
49	chr5:40724400-40729600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
50	chr5:40724400-40733200	Weak transcription	Stomach Mucosa	stomach

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