Variant report

Variant	rs12290966
Chromosome Location	chr11:104670571-104670572
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1030396	0.88[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10791727	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10791731	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10895729	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10895734	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11226522	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11226523	0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1147045	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1200650	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12272284	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12281159	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12285132	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12288571	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12362816	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12790772	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12808709	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1344309	0.88[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1365391	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1426545	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1944899	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2162340	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7130861	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72972953	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7484214	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7924865	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs960904	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs988591	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046098	chr11:104207210-105003661	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv1054456	chr11:104358924-104805251	Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv531430	chr11:104380924-105194452	Genic enhancers Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv826072	chr11:104662708-104768357	Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	esv33027	chr11:104668695-104670891	Enhancers Active TSS Flanking Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:104669200-104670600	Flanking Active TSS	Primary B cells from cord blood	blood
2	chr11:104669200-104670600	Active TSS	Duodenum Mucosa	Duodenum
3	chr11:104669200-104670600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
4	chr11:104669400-104670600	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
5	chr11:104669400-104670600	Active TSS	Rectal Mucosa Donor 29	rectum
6	chr11:104669800-104670600	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr11:104669800-104670600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
8	chr11:104670000-104670600	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
9	chr11:104670000-104670600	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
10	chr11:104670000-104670800	Enhancers	Dnd41	blood
11	chr11:104670200-104670600	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
12	chr11:104670200-104670600	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
13	chr11:104670200-104670600	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
14	chr11:104670200-104670600	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr11:104670200-104670600	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
16	chr11:104670400-104670600	Flanking Active TSS	Primary T cells fromperipheralblood	blood
17	chr11:104670400-104670600	Enhancers	Ovary	ovary
18	chr11:104670400-104670600	Enhancers	GM12878-XiMat	blood
19	chr11:104670400-104670800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
20	chr11:104670400-104670800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
21	chr11:104670400-104671000	Weak transcription	Primary T cells from cord blood	blood
22	chr11:104670400-104671200	Enhancers	Primary B cells from peripheral blood	blood
23	chr11:104670400-104671600	Enhancers	Primary T helper cells PMA-I stimulated	--
24	chr11:104670400-104671800	Enhancers	Primary T helper naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links