Variant report

Variant	rs3765158
Chromosome Location	chr4:54327584-54327585
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 81 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs10000746	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10001201	0.86[CEU][hapmap];0.82[EUR][1000 genomes]
rs10005424	0.85[EUR][1000 genomes]
rs10007903	0.86[CEU][hapmap];0.86[EUR][1000 genomes]
rs10011259	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10017903	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10021541	0.81[EUR][1000 genomes]
rs10028142	0.88[EUR][1000 genomes]
rs1021099	0.81[EUR][1000 genomes]
rs11133266	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[YRI][hapmap];0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11722866	0.86[EUR][1000 genomes]
rs11723755	0.86[EUR][1000 genomes]
rs11725230	0.86[CEU][hapmap];0.86[EUR][1000 genomes]
rs11731499	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11734039	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs11734681	0.82[CEU][hapmap];0.84[EUR][1000 genomes]
rs11947256	0.81[EUR][1000 genomes]
rs12507563	0.82[CEU][hapmap]
rs12507739	0.82[CEU][hapmap]
rs12508701	0.82[CEU][hapmap]
rs12511088	0.82[CEU][hapmap]
rs12511253	0.81[CEU][hapmap]
rs12642403	0.82[CEU][hapmap]
rs12649718	0.82[EUR][1000 genomes]
rs12651390	0.86[CEU][hapmap]
rs1471597	0.81[EUR][1000 genomes]
rs1481819	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.95[MEX][hapmap];0.98[MKK][hapmap];0.97[TSI][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1481824	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.89[YRI][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1531748	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1600795	0.95[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17082782	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17082893	0.82[CEU][hapmap]
rs17520800	0.88[EUR][1000 genomes]
rs2090117	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.97[TSI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2271554	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2271559	0.81[CEU][hapmap]
rs2412447	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs2412488	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28414913	0.88[EUR][1000 genomes]
rs28579268	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35499169	0.81[EUR][1000 genomes]
rs36011216	0.83[EUR][1000 genomes]
rs3811782	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3811785	0.86[CEU][hapmap];0.87[EUR][1000 genomes]
rs4864759	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4864760	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs4864767	0.82[CEU][hapmap]
rs56998298	0.81[EUR][1000 genomes]
rs6554100	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6554104	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs6554105	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs6554106	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6818788	0.82[CEU][hapmap]
rs6822201	0.82[CEU][hapmap]
rs6825364	0.86[EUR][1000 genomes]
rs6827269	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6828559	0.81[CEU][hapmap]
rs6833766	0.86[CEU][hapmap];0.86[EUR][1000 genomes]
rs6834934	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6838260	0.82[CEU][hapmap]
rs6839922	0.82[CEU][hapmap]
rs6840530	0.82[CEU][hapmap]
rs6848887	0.82[EUR][1000 genomes]
rs6852884	0.87[ASW][hapmap];0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6857024	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6857869	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6858320	0.86[AFR][1000 genomes]
rs7655975	0.81[EUR][1000 genomes]
rs7682199	0.85[EUR][1000 genomes]
rs7686876	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs7689981	0.85[EUR][1000 genomes]
rs7690908	0.88[EUR][1000 genomes]
rs7691578	0.86[EUR][1000 genomes]
rs7697622	0.82[EUR][1000 genomes]
rs7698792	0.86[CEU][hapmap];0.87[EUR][1000 genomes]
rs931181	0.86[CEU][hapmap];0.82[EUR][1000 genomes]
rs931182	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs967018	0.80[YRI][hapmap]
rs980987	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9995284	0.84[EUR][1000 genomes]
rs9996883	0.82[CEU][hapmap]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs3765158	ZNF585A	cis	Frontal Cortex	GTEx
rs3765158	LYRM5	trans	cerebellum	SCAN
rs3765158	TYW1B	trans	parietal	SCAN
rs3765158	EXOC1	cis	cerebellum	SCAN

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:54268000-54327600	Weak transcription	Colon Smooth Muscle	Colon
2	chr4:54270000-54330800	Weak transcription	Brain Substantia Nigra	brain
3	chr4:54291800-54329400	Strong transcription	Monocytes-CD14+_RO01746	blood
4	chr4:54292200-54331200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr4:54295200-54331600	Weak transcription	Hela-S3	cervix
6	chr4:54295600-54339400	Weak transcription	Fetal Brain Male	brain
7	chr4:54297600-54329600	Strong transcription	Dnd41	blood
8	chr4:54298600-54329600	Strong transcription	Primary T helper cells fromperipheralblood	blood
9	chr4:54316400-54329200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr4:54316800-54332600	Weak transcription	Esophagus	oesophagus
11	chr4:54317200-54331400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr4:54317400-54332600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr4:54317800-54329600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr4:54318000-54329200	Strong transcription	Primary monocytes fromperipheralblood	blood
15	chr4:54318000-54329600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr4:54318200-54329200	Strong transcription	Primary T cells fromperipheralblood	blood
17	chr4:54318200-54329200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
18	chr4:54318200-54329800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr4:54318200-54330200	Strong transcription	Placenta	Placenta
20	chr4:54318400-54327600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr4:54318400-54328600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr4:54318400-54329000	Strong transcription	Primary T helper cells PMA-I stimulated	--
23	chr4:54318400-54329800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr4:54318400-54329800	Strong transcription	Primary B cells from cord blood	blood
25	chr4:54318600-54329400	Strong transcription	Primary B cells from peripheral blood	blood
26	chr4:54318600-54329600	Strong transcription	Rectal Mucosa Donor 29	rectum
27	chr4:54318600-54330000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr4:54318600-54330000	Strong transcription	Fetal Thymus	thymus
29	chr4:54318600-54330400	Strong transcription	Primary hematopoietic stem cells	blood
30	chr4:54318800-54328000	Strong transcription	Rectal Mucosa Donor 31	rectum
31	chr4:54318800-54329600	Strong transcription	Adipose Nuclei	Adipose
32	chr4:54318800-54329800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
33	chr4:54318800-54330200	Strong transcription	HUES64 Cell Line	embryonic stem cell
34	chr4:54319000-54329400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr4:54319000-54329600	Strong transcription	HUES48 Cell Line	embryonic stem cell
36	chr4:54319000-54330200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr4:54319400-54328400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
38	chr4:54319600-54328400	Weak transcription	Lung	lung
39	chr4:54320000-54332600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr4:54320000-54332600	Weak transcription	Aorta	Aorta
41	chr4:54320000-54332800	Weak transcription	Fetal Stomach	stomach
42	chr4:54320000-54342000	Weak transcription	Pancreas	Pancrea
43	chr4:54320000-54353200	Weak transcription	Gastric	stomach
44	chr4:54321000-54332600	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr4:54321200-54329800	Weak transcription	Right Ventricle	heart
46	chr4:54321200-54331800	Weak transcription	Ovary	ovary
47	chr4:54321400-54329000	Weak transcription	Brain Cingulate Gyrus	brain
48	chr4:54321400-54329200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr4:54321400-54341800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr4:54321800-54328200	Weak transcription	Spleen	Spleen

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links