Variant report

Variant	rs17733613
Chromosome Location	chr15:41917585-41917586
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11070343	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11629678	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11639043	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17676742	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28526689	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28708888	0.92[EUR][1000 genomes]
rs4923905	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8023311	0.83[ASN][1000 genomes]
rs9672298	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9672360	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9672671	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1052902	chr15:41869277-41951572	Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17733613	MGA	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41913800-41939400	Weak transcription	Primary hematopoietic stem cells	blood
2	chr15:41914200-41924600	Weak transcription	Colon Smooth Muscle	Colon
3	chr15:41914200-41935800	Weak transcription	Gastric	stomach
4	chr15:41914400-41925800	Weak transcription	Lung	lung
5	chr15:41914600-41917600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr15:41914600-41918000	Weak transcription	Spleen	Spleen
7	chr15:41914600-41922800	Weak transcription	Duodenum Mucosa	Duodenum
8	chr15:41914600-41924400	Weak transcription	Ovary	ovary
9	chr15:41914600-41924600	Weak transcription	Left Ventricle	heart
10	chr15:41915000-41921600	Weak transcription	Psoas Muscle	Psoas
11	chr15:41915000-41921600	Weak transcription	NHDF-Ad	bronchial
12	chr15:41915000-41922000	Weak transcription	Brain Cingulate Gyrus	brain
13	chr15:41915000-41924200	Weak transcription	Brain Anterior Caudate	brain
14	chr15:41915000-41924600	Weak transcription	Right Atrium	heart
15	chr15:41915000-41926000	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr15:41915000-41927400	Weak transcription	Fetal Muscle Leg	muscle
17	chr15:41915200-41922200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr15:41915200-41924400	Weak transcription	Brain Substantia Nigra	brain
19	chr15:41915600-41921400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr15:41917200-41917800	Strong transcription	Hela-S3	cervix
21	chr15:41917400-41921600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr15:41917400-41922400	Weak transcription	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links