Variant report

Variant	rs2011483
Chromosome Location	chr10:93907150-93907151
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10882029	0.83[ASN][1000 genomes]
rs10882034	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10882035	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10882036	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10882039	0.81[ASN][1000 genomes]
rs10882043	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11186840	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11186848	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11186851	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11186862	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11186869	0.81[ASN][1000 genomes]
rs11186872	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12246924	0.83[ASN][1000 genomes]
rs3740302	0.81[ASN][1000 genomes]
rs56072007	0.82[ASN][1000 genomes]
rs57381242	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs59386062	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs66521023	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs66882667	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7073372	0.83[ASN][1000 genomes]
rs7080101	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7080731	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7098170	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7900400	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7917088	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs932820	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9804247	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051226	chr10:93711296-93915586	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv540745	chr10:93711296-93915586	Weak transcription Enhancers Bivalent Enhancer Strong transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv975763	chr10:93822289-94105956	Enhancers Bivalent Enhancer Strong transcription Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv1046258	chr10:93866969-94466106	Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2011483	TNKS2	cis	Thyroid	GTEx

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93885400-93908400	Weak transcription	Lung	lung
2	chr10:93886200-93907800	Weak transcription	Psoas Muscle	Psoas
3	chr10:93886200-93910800	Weak transcription	Pancreas	Pancrea
4	chr10:93886200-93911600	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr10:93892600-93911000	Weak transcription	Fetal Heart	heart
6	chr10:93895000-93909000	Weak transcription	Rectal Smooth Muscle	rectum
7	chr10:93898200-93926200	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr10:93902600-93907400	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr10:93902600-93908200	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr10:93902800-93910800	Weak transcription	Ovary	ovary
11	chr10:93902800-93911000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr10:93903000-93911000	Weak transcription	Colon Smooth Muscle	Colon
13	chr10:93903000-93925600	Weak transcription	Primary hematopoietic stem cells	blood
14	chr10:93903800-93907200	Weak transcription	GM12878-XiMat	blood
15	chr10:93904800-93907400	Enhancers	Primary B cells from cord blood	blood
16	chr10:93905400-93916800	Weak transcription	Right Atrium	heart
17	chr10:93906200-93907200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
18	chr10:93906200-93925600	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr10:93906400-93908000	Enhancers	Brain Angular Gyrus	brain
20	chr10:93906400-93908200	Enhancers	Primary B cells from peripheral blood	blood
21	chr10:93906400-93908200	Enhancers	Brain Substantia Nigra	brain
22	chr10:93906400-93908400	Enhancers	Pancreatic Islets	Pancreatic Islet
23	chr10:93906400-93908600	Enhancers	Brain Anterior Caudate	brain
24	chr10:93906600-93907200	Enhancers	Left Ventricle	heart
25	chr10:93906600-93907200	Enhancers	Right Ventricle	heart
26	chr10:93906600-93907400	Enhancers	Brain Cingulate Gyrus	brain
27	chr10:93906600-93907400	Enhancers	Spleen	Spleen
28	chr10:93906600-93908400	Enhancers	Brain Hippocampus Middle	brain
29	chr10:93906800-93907600	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr10:93906800-93907600	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr10:93906800-93908000	Weak transcription	Gastric	stomach
32	chr10:93906800-93911000	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr10:93906800-93925600	Weak transcription	Primary monocytes fromperipheralblood	blood
34	chr10:93906800-93926600	Weak transcription	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links