Variant report

Variant	rs631969
Chromosome Location	chr11:121065886-121065887
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:120530509..120531385-chr11:121065365..121066021,2	K562	blood:
2	chr11:120804744..120805510-chr11:121065438..121066046,3	K562	blood:

Extended variants
information (count: 60 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10892687	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11218155	0.85[JPT][hapmap]
rs11218169	0.87[ASN][1000 genomes]
rs11218175	0.85[ASN][1000 genomes]
rs11218176	0.91[ASN][1000 genomes]
rs11218191	0.92[ASN][1000 genomes]
rs11218198	0.99[ASN][1000 genomes]
rs11524440	0.89[ASN][1000 genomes]
rs12575628	0.90[JPT][hapmap]
rs1310521	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1310528	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17124937	0.99[ASN][1000 genomes]
rs17124940	0.99[ASN][1000 genomes]
rs17124945	0.98[ASN][1000 genomes]
rs2155364	0.85[JPT][hapmap]
rs2155365	0.91[CEU][hapmap];0.85[JPT][hapmap];0.89[EUR][1000 genomes]
rs2155369	0.93[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs22298	0.87[CEU][hapmap];0.81[CHB][hapmap];0.85[CHD][hapmap];0.95[GIH][hapmap];0.90[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4554895	0.85[JPT][hapmap]
rs481703	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs492047	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs492294	0.87[CEU][hapmap];0.85[JPT][hapmap];0.89[EUR][1000 genomes]
rs4935763	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4936580	0.84[GIH][hapmap];0.85[JPT][hapmap];0.85[TSI][hapmap]
rs4936593	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs510722	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs527258	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs543119	0.87[CEU][hapmap];0.85[JPT][hapmap];0.88[EUR][1000 genomes]
rs546916	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs552580	0.91[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs560365	0.85[JPT][hapmap]
rs560401	0.85[JPT][hapmap]
rs561195	0.85[JPT][hapmap]
rs562281	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs575030	0.82[EUR][1000 genomes]
rs576271	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs582876	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs584355	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs588917	0.87[CEU][hapmap];0.85[JPT][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs592160	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs594951	0.87[GIH][hapmap];0.85[JPT][hapmap];0.87[TSI][hapmap]
rs596882	0.85[JPT][hapmap]
rs599894	0.87[CEU][hapmap];0.81[CHB][hapmap];0.90[JPT][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs60016568	0.98[ASN][1000 genomes]
rs601102	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs605379	0.85[JPT][hapmap]
rs618523	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs620896	0.91[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.84[YRI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs633012	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs638496	0.85[EUR][1000 genomes]
rs640332	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs662496	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs663031	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs663435	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs677336	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs677775	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs679607	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs686882	0.87[CEU][hapmap];0.87[CHB][hapmap];0.90[JPT][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs688641	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7105435	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs631969	VPS11	cis	cerebellum	SCAN
rs631969	CD3G	cis	cerebellum	SCAN
rs631969	TMEM225	cis	cerebellum	SCAN
rs631969	FXYD6	cis	cerebellum	SCAN
rs631969	TAGLN	cis	cerebellum	SCAN
rs631969	HINFP	cis	cerebellum	SCAN

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:121058800-121069000	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr11:121062600-121070000	Weak transcription	Fetal Heart	heart
3	chr11:121064600-121069000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr11:121065400-121066000	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr11:121065400-121066400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr11:121065400-121066400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr11:121065600-121066000	Enhancers	H1 Cell Line	embryonic stem cell
8	chr11:121065600-121066000	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr11:121065600-121066000	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr11:121065600-121066000	Bivalent Enhancer	Primary B cells from peripheral blood	blood
11	chr11:121065600-121066000	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
12	chr11:121065600-121066000	Flanking Bivalent TSS/Enh	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr11:121065600-121066000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr11:121065600-121066000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr11:121065600-121066000	Enhancers	Adipose Nuclei	Adipose
16	chr11:121065600-121066000	Flanking Active TSS	Liver	Liver
17	chr11:121065600-121066000	Active TSS	Brain Angular Gyrus	brain
18	chr11:121065600-121066000	Flanking Active TSS	GM12878-XiMat	blood
19	chr11:121065600-121066000	Enhancers	HSMM	muscle
20	chr11:121065600-121066000	Flanking Active TSS	HUVEC	blood vessel
21	chr11:121065600-121066200	Active TSS	Brain Inferior Temporal Lobe	brain
22	chr11:121065600-121066200	Enhancers	Fetal Kidney	kidney
23	chr11:121065800-121066000	Enhancers	iPS-18 Cell Line	embryonic stem cell
24	chr11:121065800-121066000	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 2	blood
25	chr11:121065800-121066000	Bivalent Enhancer	Primary mononuclear cells fromperipheralblood	Blood
26	chr11:121065800-121066000	Active TSS	Brain Cingulate Gyrus	brain
27	chr11:121065800-121066000	Flanking Active TSS	HSMMtube	muscle
28	chr11:121065800-121066200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr11:121065800-121066200	Bivalent Enhancer	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr11:121065800-121070200	Weak transcription	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links