Variant report

Variant	rs12362429
Chromosome Location	chr11:45278203-45278204
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1000665	1.00[ASW][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];0.92[JPT][hapmap];0.87[MEX][hapmap];0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10769137	0.85[EUR][1000 genomes]
rs10838436	1.00[CHB][hapmap];0.90[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.80[LWK][hapmap];0.98[ASN][1000 genomes]
rs10838439	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11038366	0.90[CHB][hapmap]
rs11038371	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11601021	0.90[CHB][hapmap];0.83[JPT][hapmap]
rs12278234	0.90[CHB][hapmap]
rs12362444	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.80[MKK][hapmap];0.98[TSI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12362448	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2863179	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3180446	0.90[CHB][hapmap]
rs4755308	0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4755940	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.80[LWK][hapmap];0.84[MEX][hapmap];0.98[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7124508	0.90[ASW][hapmap];0.89[GIH][hapmap]
rs751197	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs751198	0.85[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.80[MEX][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs751995	0.81[CEU][hapmap];0.84[EUR][1000 genomes]
rs7942231	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs12362429	SYT13	cis	Skin Sun Exposed Lower leg	GTEx
rs12362429	HARBI1	cis	parietal	SCAN
rs12362429	SYT13	cis	normal skin	skin_eQTL
rs12362429	SYT13	cis	cerebellum	SCAN

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:45259800-45279800	Weak transcription	Fetal Brain Male	brain
2	chr11:45264400-45280400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr11:45265400-45281200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr11:45267800-45280400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr11:45272800-45281200	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr11:45274000-45280600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr11:45274400-45280000	Strong transcription	Fetal Intestine Small	intestine
8	chr11:45274400-45280000	Weak transcription	A549	lung
9	chr11:45274400-45281000	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr11:45274400-45281200	Weak transcription	Pancreas	Pancrea
11	chr11:45274400-45281400	Weak transcription	Gastric	stomach
12	chr11:45274600-45280600	Weak transcription	Colonic Mucosa	Colon
13	chr11:45274600-45281000	Weak transcription	HSMM	muscle
14	chr11:45275600-45281200	Weak transcription	HSMMtube	muscle
15	chr11:45276000-45281000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr11:45276000-45281000	Weak transcription	NH-A	brain
17	chr11:45276200-45281000	Weak transcription	Duodenum Mucosa	Duodenum
18	chr11:45277200-45280800	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr11:45277600-45280600	Weak transcription	Fetal Intestine Large	intestine
20	chr11:45277800-45280200	Weak transcription	Fetal Brain Female	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links