Variant report

Variant	rs12667418
Chromosome Location	chr7:16122923-16122924
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10227232	0.85[CEU][hapmap];0.82[TSI][hapmap]
rs1034959	0.82[YRI][hapmap]
rs10487911	0.82[EUR][1000 genomes]
rs10950600	0.82[EUR][1000 genomes]
rs10950601	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10950604	0.81[EUR][1000 genomes]
rs11760631	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11760717	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11762563	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11766276	0.81[EUR][1000 genomes]
rs11773181	0.85[YRI][hapmap]
rs11773533	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12533693	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12537658	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12539174	0.84[EUR][1000 genomes]
rs12539945	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12699766	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12699769	0.82[EUR][1000 genomes]
rs13221870	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13231996	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13245773	0.81[EUR][1000 genomes]
rs1405591	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1527203	0.82[EUR][1000 genomes]
rs1527205	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17169263	0.85[YRI][hapmap]
rs17284967	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2240855	0.82[EUR][1000 genomes]
rs28444529	0.84[EUR][1000 genomes]
rs34612021	0.81[EUR][1000 genomes]
rs66933521	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6945862	0.94[CHB][hapmap]
rs6959719	0.82[EUR][1000 genomes]
rs6960138	0.85[YRI][hapmap]
rs758702	0.81[EUR][1000 genomes]
rs7777809	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7801576	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016642	chr7:15884061-16799788	Genic enhancers Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	nsv949309	chr7:15986709-16236162	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv949555	chr7:16078412-16279290	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12667418	TMEM106B	cis	cerebellum	SCAN
rs12667418	HDAC9	cis	cerebellum	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:16117200-16126400	Weak transcription	Aorta	Aorta
2	chr7:16118200-16129400	Weak transcription	Fetal Muscle Leg	muscle
3	chr7:16118400-16123000	Weak transcription	HUVEC	blood vessel
4	chr7:16120000-16123000	Weak transcription	HMEC	breast
5	chr7:16120000-16123400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr7:16121200-16123200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr7:16121800-16126400	Weak transcription	Gastric	stomach
8	chr7:16122200-16133000	Weak transcription	Psoas Muscle	Psoas
9	chr7:16122400-16135400	Weak transcription	Left Ventricle	heart

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