Variant report

Variant	rs618523
Chromosome Location	chr11:121061986-121061987
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TBCEL-1	chr11:121061481-121062195	NONHSAT024737

Extended variants
information (count: 60 )
Associated
traits (count: 5 )

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

rs_ID	r²[population]
rs10892687	0.86[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	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1310528	0.82[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	0.82[CHD][hapmap];0.85[JPT][hapmap]
rs2155365	0.95[CEU][hapmap];0.85[JPT][hapmap];0.88[EUR][1000 genomes]
rs2155369	0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs22298	0.91[CEU][hapmap];0.81[CHB][hapmap];0.88[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.87[MEX][hapmap];0.98[TSI][hapmap];0.89[EUR][1000 genomes]
rs4554895	0.85[JPT][hapmap]
rs481703	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs492047	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs492294	0.91[CEU][hapmap];0.85[JPT][hapmap];0.89[EUR][1000 genomes]
rs4935763	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4936580	0.82[GIH][hapmap];0.85[JPT][hapmap];0.82[TSI][hapmap]
rs4936593	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs510722	0.85[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	0.82[CEU][hapmap];0.85[JPT][hapmap];0.88[EUR][1000 genomes]
rs546916	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs552580	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.98[TSI][hapmap];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	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs575030	0.80[EUR][1000 genomes]
rs576271	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs582876	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs584355	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs588917	0.91[CEU][hapmap];0.85[JPT][hapmap];0.89[EUR][1000 genomes]
rs592160	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs594951	0.85[GIH][hapmap];0.85[JPT][hapmap];0.84[TSI][hapmap]
rs596882	0.85[JPT][hapmap]
rs599894	0.91[CEU][hapmap];0.81[CHB][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes]
rs60016568	0.98[ASN][1000 genomes]
rs601102	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs605379	0.85[JPT][hapmap]
rs620896	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.98[TSI][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs631969	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs633012	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs638496	0.85[EUR][1000 genomes]
rs640332	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs662496	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[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	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.98[TSI][hapmap];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs677336	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs677775	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs679607	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs686882	0.91[CEU][hapmap];0.87[CHB][hapmap];0.90[JPT][hapmap];0.90[EUR][1000 genomes]
rs688641	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7105435	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs618523	VPS11	cis	cerebellum	SCAN
rs618523	CD3G	cis	cerebellum	SCAN
rs618523	TMEM225	cis	cerebellum	SCAN
rs618523	HINFP	cis	cerebellum	SCAN
rs618523	TAGLN	cis	cerebellum	SCAN

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:121052800-121065600	Weak transcription	Gastric	stomach
2	chr11:121053800-121065600	Weak transcription	Pancreas	Pancrea
3	chr11:121055400-121065600	Weak transcription	Ovary	ovary
4	chr11:121055600-121065600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr11:121056200-121062000	Weak transcription	Fetal Brain Female	brain
6	chr11:121056800-121065400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr11:121056800-121065600	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr11:121058000-121065400	Weak transcription	Fetal Lung	lung
9	chr11:121058200-121062000	Weak transcription	Fetal Muscle Leg	muscle
10	chr11:121058600-121062600	Weak transcription	Brain Cingulate Gyrus	brain
11	chr11:121058800-121069000	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr11:121061600-121062600	Enhancers	HSMMtube	muscle
13	chr11:121061800-121062000	Enhancers	Stomach Smooth Muscle	stomach
14	chr11:121061800-121062600	Enhancers	Fetal Heart	heart
15	chr11:121061800-121063200	Enhancers	Right Atrium	heart

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