Variant report

Variant	rs12342969
Chromosome Location	chr9:8327792-8327793
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10976901	1.00[AMR][1000 genomes]
rs10976945	1.00[AMR][1000 genomes]
rs10976986	1.00[AMR][1000 genomes]
rs10977011	1.00[AMR][1000 genomes]
rs10977087	1.00[AMR][1000 genomes]
rs12335734	1.00[AMR][1000 genomes]
rs12335970	1.00[AMR][1000 genomes]
rs12336314	1.00[AMR][1000 genomes]
rs12336360	1.00[AMR][1000 genomes]
rs12337640	1.00[AMR][1000 genomes]
rs12338276	1.00[AMR][1000 genomes]
rs12338619	1.00[AMR][1000 genomes]
rs12338889	1.00[AMR][1000 genomes]
rs12339065	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12339710	1.00[AMR][1000 genomes]
rs12341516	1.00[AMR][1000 genomes]
rs12342740	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12343245	1.00[AMR][1000 genomes]
rs12343761	1.00[AMR][1000 genomes]
rs12345027	1.00[AMR][1000 genomes]
rs12345562	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12345617	1.00[AMR][1000 genomes]
rs12346847	1.00[AMR][1000 genomes]
rs12347647	1.00[AMR][1000 genomes]
rs12350567	1.00[AMR][1000 genomes]
rs12351899	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12352299	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12353003	1.00[AMR][1000 genomes]
rs13439921	1.00[AMR][1000 genomes]
rs28585575	1.00[AMR][1000 genomes]
rs3903827	1.00[AMR][1000 genomes]
rs7035353	1.00[AMR][1000 genomes]
rs7035451	1.00[AMR][1000 genomes]
rs7045988	1.00[AMR][1000 genomes]
rs7046946	1.00[AMR][1000 genomes]
rs7048112	1.00[AMR][1000 genomes]
rs73410514	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73420445	1.00[AMR][1000 genomes]
rs73420453	1.00[AMR][1000 genomes]
rs73420457	1.00[AMR][1000 genomes]
rs73420468	1.00[AMR][1000 genomes]
rs73428153	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7871181	1.00[AMR][1000 genomes]
rs7873894	1.00[AMR][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	nsv8414	chr9:7827373-8511613	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1031472	chr9:8250901-8712547	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv892224	chr9:8263737-8338431	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS	miRNA target site	n/a	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8312200-8338200	Weak transcription	Brain Angular Gyrus	brain
2	chr9:8313800-8329400	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr9:8316000-8329600	Weak transcription	Ovary	ovary
4	chr9:8318200-8329000	Weak transcription	Fetal Muscle Trunk	muscle
5	chr9:8322800-8327800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr9:8323400-8329000	Weak transcription	Fetal Lung	lung
7	chr9:8323400-8329400	Weak transcription	Brain Anterior Caudate	brain
8	chr9:8323400-8341600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr9:8323800-8328400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr9:8323800-8329600	Weak transcription	Primary hematopoietic stem cells	blood
11	chr9:8323800-8329600	Weak transcription	Brain Hippocampus Middle	brain
12	chr9:8323800-8329800	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr9:8323800-8341600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr9:8324000-8345000	Weak transcription	Fetal Brain Male	brain
15	chr9:8324200-8328800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr9:8324200-8329400	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr9:8324400-8337400	Weak transcription	Brain Germinal Matrix	brain
18	chr9:8326400-8329200	Weak transcription	Fetal Brain Female	brain
19	chr9:8326400-8331000	Weak transcription	Fetal Kidney	kidney
20	chr9:8326800-8337400	Weak transcription	Brain Cingulate Gyrus	brain
21	chr9:8327000-8329200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr9:8327200-8338000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr9:8327400-8329000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr9:8327600-8328400	Weak transcription	Fetal Muscle Leg	muscle
25	chr9:8327600-8329200	Weak transcription	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links