Variant report

Variant	rs9326895
Chromosome Location	chr5:112903834-112903835
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 69 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10071966	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1035408	0.85[EUR][1000 genomes]
rs1132528	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11957650	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12523145	0.82[JPT][hapmap]
rs12659978	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1517210	1.00[ASW][hapmap];0.84[CEU][hapmap];0.83[GIH][hapmap];0.88[JPT][hapmap];0.97[MKK][hapmap]
rs164251	0.96[CEU][hapmap];0.88[JPT][hapmap]
rs171181	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs17327526	1.00[LWK][hapmap]
rs1820056	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs182987	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2303717	0.91[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2416282	0.84[ASW][hapmap];1.00[LWK][hapmap];0.92[MEX][hapmap];0.97[MKK][hapmap]
rs2431548	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2434664	0.81[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs2434665	1.00[CEU][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs255856	1.00[ASW][hapmap];0.84[CEU][hapmap];0.83[GIH][hapmap];0.88[JPT][hapmap];0.83[LWK][hapmap];0.92[MEX][hapmap];0.97[MKK][hapmap]
rs26985	0.81[CEU][hapmap];0.94[JPT][hapmap]
rs26991	0.82[JPT][hapmap]
rs27566	1.00[ASW][hapmap];0.84[CEU][hapmap];0.83[GIH][hapmap];0.88[JPT][hapmap];0.83[LWK][hapmap];0.92[MEX][hapmap];0.91[MKK][hapmap]
rs2910018	1.00[CEU][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2914153	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs348927	0.81[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs348933	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs348949	0.81[AFR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs348950	0.81[AFR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs348953	0.85[AFR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3763139	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3857435	1.00[ASW][hapmap];0.84[CEU][hapmap];0.82[GIH][hapmap];0.94[JPT][hapmap];0.92[MEX][hapmap];0.97[MKK][hapmap]
rs3857437	0.89[CHB][hapmap]
rs3906371	0.87[CHD][hapmap];0.96[MEX][hapmap]
rs3936062	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs406288	0.80[EUR][1000 genomes]
rs423089	0.96[CEU][hapmap];0.88[JPT][hapmap];0.81[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs4235796	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4398627	0.84[MEX][hapmap]
rs4415069	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4438867	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4444963	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs459428	0.96[CEU][hapmap];0.88[JPT][hapmap];0.81[AMR][1000 genomes]
rs461034	0.96[CEU][hapmap]
rs463216	0.96[CEU][hapmap];0.81[JPT][hapmap]
rs4639215	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];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs465898	0.96[CEU][hapmap];0.81[JPT][hapmap];0.81[AMR][1000 genomes]
rs466564	0.81[CEU][hapmap];0.94[JPT][hapmap]
rs4705830	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4705831	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57617774	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62373764	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6594711	0.84[CEU][hapmap];0.94[JPT][hapmap]
rs6594735	0.82[JPT][hapmap]
rs6594736	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs66534827	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs675353	1.00[ASW][hapmap];0.96[CEU][hapmap];0.84[CHD][hapmap];0.91[GIH][hapmap];0.94[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];0.81[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs6881976	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6886199	0.82[JPT][hapmap]
rs6886338	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7702120	0.83[CEU][hapmap];0.87[JPT][hapmap]
rs7702405	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7703233	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7713378	0.95[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9552	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.94[JPT][hapmap];0.96[MEX][hapmap];0.82[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9885084	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882720	chr5:112859994-112911165	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv882721	chr5:112859994-112963488	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
3	nsv882723	chr5:112868878-112911165	Strong transcription Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv882724	chr5:112868878-112933202	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
5	nsv1033202	chr5:112891857-112945992	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs9326895	YTHDC2	cis	parietal	SCAN
rs9326895	YTHDC2	cis	cerebellum	SCAN
rs9326895	LILRP2	trans	parietal	SCAN

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:112850400-112904000	Weak transcription	Psoas Muscle	Psoas
2	chr5:112850600-112908400	Weak transcription	Colonic Mucosa	Colon
3	chr5:112867000-112910000	Weak transcription	Right Ventricle	heart
4	chr5:112867200-112904000	Weak transcription	Lung	lung
5	chr5:112867200-112904200	Weak transcription	Aorta	Aorta
6	chr5:112867200-112909800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr5:112867200-112909800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr5:112867200-112910000	Weak transcription	Esophagus	oesophagus
9	chr5:112867400-112926000	Weak transcription	Small Intestine	intestine
10	chr5:112867400-112933000	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr5:112868600-112911400	Strong transcription	Primary T helper cells fromperipheralblood	blood
12	chr5:112869200-112910000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr5:112870200-112930800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr5:112872000-112904000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr5:112872000-112915000	Weak transcription	Hela-S3	cervix
16	chr5:112873400-112908800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr5:112874000-112909600	Weak transcription	Spleen	Spleen
18	chr5:112876000-112918800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr5:112877200-112905800	Weak transcription	Fetal Stomach	stomach
20	chr5:112879600-112904200	Weak transcription	Gastric	stomach
21	chr5:112881800-112906400	Weak transcription	Fetal Intestine Small	intestine
22	chr5:112882600-112904000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
23	chr5:112882800-112909600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr5:112883800-112907400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr5:112884200-112905200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr5:112884200-112905600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr5:112884200-112908000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr5:112886600-112911200	Strong transcription	Primary B cells from peripheral blood	blood
29	chr5:112887800-112904400	Strong transcription	Fetal Intestine Large	intestine
30	chr5:112888000-112908200	Strong transcription	Liver	Liver
31	chr5:112888800-112908400	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr5:112889400-112930600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr5:112889600-112904000	Weak transcription	Fetal Heart	heart
34	chr5:112889800-112909600	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr5:112889800-112910000	Weak transcription	HSMMtube	muscle
36	chr5:112890600-112915800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
37	chr5:112891600-112906600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
38	chr5:112891600-112908200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr5:112891600-112912600	Weak transcription	Stomach Mucosa	stomach
40	chr5:112892000-112906600	Strong transcription	Placenta	Placenta
41	chr5:112892800-112915000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
42	chr5:112893000-112904200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
43	chr5:112893200-112906400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr5:112894000-112904000	Weak transcription	Fetal Brain Male	brain
45	chr5:112894200-112905600	Strong transcription	HUES48 Cell Line	embryonic stem cell
46	chr5:112894400-112911800	Strong transcription	Monocytes-CD14+_RO01746	blood
47	chr5:112894600-112910800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr5:112894800-112906400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr5:112894800-112907400	Strong transcription	Primary monocytes fromperipheralblood	blood
50	chr5:112894800-112908000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood

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