Variant report

Variant	rs9836162
Chromosome Location	chr3:42747548-42747549
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ZKSCAN1	chr3:42747524-42747608	Hela-S3	cervix:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:42746557..42750988-chr3:42768421..42772654,4	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KBTBD5-1	chr3:42747539-42748154	ENSG00000230970.2

Variant related genes	Relation type
HHATL	TF binding region

Extended variants
information (count: 31 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10461012	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10865920	0.95[EUR][1000 genomes]
rs10865921	0.95[EUR][1000 genomes]
rs10865923	0.89[EUR][1000 genomes]
rs11129969	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs11129970	0.96[EUR][1000 genomes]
rs11709054	0.93[EUR][1000 genomes]
rs11709500	1.00[CEU][hapmap];0.86[TSI][hapmap];0.94[EUR][1000 genomes]
rs11713172	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11915803	0.89[CEU][hapmap];0.81[GIH][hapmap];0.83[TSI][hapmap];0.91[EUR][1000 genomes]
rs17074778	0.94[CEU][hapmap];1.00[GIH][hapmap];0.90[TSI][hapmap];0.95[EUR][1000 genomes]
rs17238314	0.96[EUR][1000 genomes]
rs17238798	0.84[CEU][hapmap];0.81[GIH][hapmap];0.83[TSI][hapmap];0.91[EUR][1000 genomes]
rs2240861	1.00[CEU][hapmap];0.96[TSI][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34110933	0.93[EUR][1000 genomes]
rs4682856	0.85[EUR][1000 genomes]
rs55884426	0.96[EUR][1000 genomes]
rs55904344	0.94[EUR][1000 genomes]
rs59478814	0.95[EUR][1000 genomes]
rs59713146	0.96[EUR][1000 genomes]
rs60049195	0.95[EUR][1000 genomes]
rs60176972	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62246603	0.94[EUR][1000 genomes]
rs62246606	0.93[EUR][1000 genomes]
rs62246635	0.83[EUR][1000 genomes]
rs62250113	0.99[EUR][1000 genomes]
rs62250114	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6442057	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs72865716	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9837412	0.83[CEU][hapmap];0.91[EUR][1000 genomes]
rs9838388	0.94[CEU][hapmap];0.89[JPT][hapmap];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs9836162	LRRC2	cis	cerebellum	SCAN
rs9836162	HHATL	cis	cerebellum	SCAN
rs9836162	EXOSC7	cis	cerebellum	SCAN
rs9836162	HHATL	cis	parietal	SCAN
rs9836162	ZNF35	cis	cerebellum	SCAN
rs9836162	FYCO1	cis	cerebellum	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:42739200-42751800	Weak transcription	Pancreas	Pancrea
2	chr3:42744200-42748600	Enhancers	Fetal Muscle Leg	muscle
3	chr3:42744400-42747800	Enhancers	Right Ventricle	heart
4	chr3:42745000-42748800	Enhancers	Skeletal Muscle Female	skeletal muscle
5	chr3:42745600-42753000	Weak transcription	Brain Cingulate Gyrus	brain
6	chr3:42745800-42752800	Weak transcription	Brain Angular Gyrus	brain
7	chr3:42746200-42747600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr3:42746200-42748600	Enhancers	Skeletal Muscle Male	skeletal muscle
9	chr3:42746200-42753000	Weak transcription	Brain Anterior Caudate	brain
10	chr3:42746600-42747800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
11	chr3:42746600-42748600	Enhancers	Left Ventricle	heart
12	chr3:42746600-42750400	Weak transcription	Spleen	Spleen
13	chr3:42746600-42752800	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr3:42746800-42752800	Weak transcription	Brain Substantia Nigra	brain
15	chr3:42747200-42747800	Enhancers	Right Atrium	heart
16	chr3:42747200-42748000	Enhancers	Psoas Muscle	Psoas
17	chr3:42747400-42752800	Weak transcription	Brain Hippocampus Middle	brain

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