Variant report

Variant	rs11892177
Chromosome Location	chr2:46965114-46965115
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:46965000..46967486-chr2:46976098..46978644,2	K562	blood:
2	chr2:46923714..46925684-chr2:46963885..46966277,2	MCF-7	breast:
3	chr2:46954874..46956811-chr2:46963158..46965367,2	K562	blood:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10495938	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11889273	1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs11892710	0.91[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs11893159	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11893443	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11893955	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11901688	0.81[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs17035540	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17771005	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs17771237	0.84[AFR][1000 genomes]
rs17771255	0.84[AFR][1000 genomes]
rs17771357	0.86[AFR][1000 genomes]
rs17772309	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17821941	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17822668	1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17822704	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs41320947	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs41349351	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs41363351	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs41370847	0.88[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs41375646	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs41379147	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs41432848	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs41478946	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4575769	0.89[AFR][1000 genomes]
rs62134765	0.93[AFR][1000 genomes]
rs6721999	0.94[ASN][1000 genomes]
rs6731970	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs6735101	0.82[YRI][hapmap]
rs6749450	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs72802460	0.87[AFR][1000 genomes]
rs7591613	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7606134	0.93[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs9677272	0.87[AFR][1000 genomes]
rs9677705	1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014425	chr2:46670179-47033417	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv535678	chr2:46670179-47033417	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv873996	chr2:46670941-47065227	Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv817517	chr2:46819371-47715140	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
5	nsv873997	chr2:46821640-46984627	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv1013079	chr2:46949337-46998417	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:46945400-46985400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr2:46947600-46975600	Weak transcription	HSMM	muscle
3	chr2:46948200-46967400	Weak transcription	Esophagus	oesophagus
4	chr2:46948200-46974600	Weak transcription	Fetal Muscle Trunk	muscle
5	chr2:46948200-46977200	Weak transcription	Aorta	Aorta
6	chr2:46948600-46974400	Weak transcription	Fetal Stomach	stomach
7	chr2:46950800-46975400	Weak transcription	Fetal Lung	lung
8	chr2:46955000-46975400	Weak transcription	Small Intestine	intestine
9	chr2:46955200-46967600	Weak transcription	Thymus	Thymus
10	chr2:46955200-46970400	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr2:46955200-46974400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr2:46955200-46984800	Weak transcription	Primary T cells fromperipheralblood	blood
13	chr2:46955200-46985400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr2:46955400-46967600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr2:46955400-46967800	Weak transcription	Duodenum Mucosa	Duodenum
16	chr2:46955400-46967800	Weak transcription	Fetal Thymus	thymus
17	chr2:46955400-46974200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr2:46956000-46975400	Weak transcription	Lung	lung
19	chr2:46956000-46980000	Weak transcription	Right Atrium	heart
20	chr2:46957400-46973200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr2:46959600-46967000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr2:46959600-46967200	Weak transcription	Ovary	ovary
23	chr2:46959600-46975000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr2:46959800-46969000	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr2:46960000-46978800	Weak transcription	Primary T cells from cord blood	blood
26	chr2:46960000-46988000	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr2:46960800-46965800	Enhancers	HepG2	liver
28	chr2:46962000-46982000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr2:46962200-46968800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr2:46962400-46965800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr2:46962600-46967800	Weak transcription	Gastric	stomach
32	chr2:46962600-46969000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr2:46963400-46965200	Weak transcription	Right Ventricle	heart
34	chr2:46963400-46967200	Weak transcription	Pancreas	Pancrea
35	chr2:46963600-46967200	Weak transcription	Left Ventricle	heart
36	chr2:46963800-46965400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr2:46964000-46965200	Weak transcription	NHDF-Ad	bronchial
38	chr2:46964000-46970600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr2:46964200-46965200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr2:46964200-46965200	Enhancers	Stomach Smooth Muscle	stomach
41	chr2:46964200-46965200	Enhancers	HUVEC	blood vessel
42	chr2:46964200-46965600	Enhancers	Duodenum Smooth Muscle	Duodenum
43	chr2:46964200-46965800	Enhancers	Hela-S3	cervix
44	chr2:46964200-46965800	Enhancers	Osteobl	bone
45	chr2:46964200-46966600	Enhancers	Pancreatic Islets	Pancreatic Islet
46	chr2:46964200-46967800	Weak transcription	Primary T helper cells PMA-I stimulated	--
47	chr2:46964400-46965200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr2:46964400-46965200	Flanking Active TSS	A549	lung
49	chr2:46964400-46965400	Enhancers	Colon Smooth Muscle	Colon
50	chr2:46964400-46965400	Enhancers	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links