Variant report

Variant	rs12292727
Chromosome Location	chr11:36294380-36294381
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C11orf55-2	chr11:36293842-36294971	NONHSAT018814

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10836525	0.98[EUR][1000 genomes]
rs11033520	0.98[EUR][1000 genomes]
rs12272725	0.98[EUR][1000 genomes]
rs12274512	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12275072	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12278582	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12282145	1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12283981	0.92[EUR][1000 genomes]
rs12285631	0.83[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12285953	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12286007	0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12286010	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12286643	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12293902	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12294357	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2289984	0.98[EUR][1000 genomes]
rs2289985	0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv467791	chr11:36108497-36999385	Flanking Active TSS Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv554003	chr11:36108497-36999385	ZNF genes & repeats Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:36276800-36294400	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr11:36279200-36294800	Weak transcription	HMEC	breast
3	chr11:36280400-36294800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr11:36280400-36299000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr11:36280800-36300200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr11:36282200-36302000	Weak transcription	NHEK	skin
7	chr11:36283000-36298000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr11:36283200-36300000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr11:36287600-36295400	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr11:36287600-36304800	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr11:36288000-36310200	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr11:36288400-36295200	Weak transcription	NHLF	lung
13	chr11:36288400-36304600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr11:36289200-36299800	Weak transcription	HepG2	liver
15	chr11:36289200-36300000	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr11:36289400-36294600	Weak transcription	Fetal Brain Male	brain
17	chr11:36290600-36296800	Strong transcription	Fetal Brain Female	brain
18	chr11:36290800-36310400	Weak transcription	Stomach Mucosa	stomach
19	chr11:36291000-36294400	Strong transcription	Cortex derived primary cultured neurospheres	brain
20	chr11:36291000-36294600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr11:36291000-36294600	Strong transcription	Fetal Intestine Small	intestine
22	chr11:36291000-36294800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr11:36291000-36298200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr11:36291000-36298400	Strong transcription	Fetal Stomach	stomach
25	chr11:36291000-36301200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr11:36291000-36301800	Weak transcription	Right Atrium	heart
27	chr11:36291200-36294400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr11:36291200-36294600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr11:36291200-36296800	Strong transcription	Brain Cingulate Gyrus	brain
30	chr11:36291200-36298000	Strong transcription	Spleen	Spleen
31	chr11:36291200-36299000	Strong transcription	Adipose Nuclei	Adipose
32	chr11:36291200-36299000	Strong transcription	Ovary	ovary
33	chr11:36291200-36299200	Strong transcription	Skeletal Muscle Female	skeletal muscle
34	chr11:36291200-36299400	Strong transcription	Brain Angular Gyrus	brain
35	chr11:36291200-36299400	Strong transcription	Brain Hippocampus Middle	brain
36	chr11:36291200-36302200	Strong transcription	Stomach Smooth Muscle	stomach
37	chr11:36291200-36302400	Strong transcription	Primary T cells from cord blood	blood
38	chr11:36291200-36302800	Strong transcription	Monocytes-CD14+_RO01746	blood
39	chr11:36291400-36295400	Weak transcription	Hela-S3	cervix
40	chr11:36291400-36298400	Strong transcription	Brain Inferior Temporal Lobe	brain
41	chr11:36291400-36298800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr11:36291400-36303000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr11:36291600-36295400	Weak transcription	GM12878-XiMat	blood
44	chr11:36291800-36294600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr11:36291800-36301200	Strong transcription	Fetal Intestine Large	intestine
46	chr11:36291800-36302200	Strong transcription	Primary monocytes fromperipheralblood	blood
47	chr11:36292000-36294600	Strong transcription	Primary B cells from peripheral blood	blood
48	chr11:36292000-36296800	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr11:36292000-36296800	Strong transcription	Brain Substantia Nigra	brain
50	chr11:36292000-36298000	Weak transcription	NH-A	brain

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