Variant report

Variant	rs11168912
Chromosome Location	chr12:49593377-49593378
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:49581166..49582933-chr12:49592262..49594599,2	K562	blood:
2	chr12:49581166..49587086-chr12:49589804..49595729,8	K562	blood:
3	chr12:49591818..49595600-chr12:49658262..49660804,4	K562	blood:
4	chr12:49580819..49584782-chr12:49592749..49596626,6	MCF-7	breast:
5	chr12:49524941..49526770-chr12:49593009..49595914,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000167553	Chromatin interaction
ENSG00000167552	Chromatin interaction
ENSG00000200309	Chromatin interaction
ENSG00000123416	Chromatin interaction
ENSG00000258101	Chromatin interaction
ENSG00000258017	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10747563	0.94[ASN][1000 genomes]
rs10875934	0.94[ASN][1000 genomes]
rs11168911	0.95[ASN][1000 genomes]
rs11168917	0.94[ASN][1000 genomes]
rs11168919	0.94[ASN][1000 genomes]
rs12229524	0.80[EUR][1000 genomes]
rs12309994	0.94[ASN][1000 genomes]
rs56149019	0.95[ASN][1000 genomes]
rs7306084	0.94[ASN][1000 genomes]
rs7959497	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][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	nsv1051161	chr12:49314550-49828473	Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Active TSS Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	322 gene(s)	inside rSNPs	diseases
2	nsv541489	chr12:49314550-49828473	Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	322 gene(s)	inside rSNPs	diseases
3	nsv1036452	chr12:49376285-49867760	Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	315 gene(s)	inside rSNPs	diseases
4	nsv428801	chr12:49536659-49744884	Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	145 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:49583200-49595800	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr12:49583400-49595800	Weak transcription	Ovary	ovary
3	chr12:49583600-49594600	Weak transcription	Fetal Kidney	kidney
4	chr12:49583600-49595800	Weak transcription	Aorta	Aorta
5	chr12:49583600-49595800	Weak transcription	Fetal Thymus	thymus
6	chr12:49584200-49594200	Weak transcription	A549	lung
7	chr12:49591000-49596200	Weak transcription	Fetal Muscle Trunk	muscle
8	chr12:49591200-49593400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr12:49591600-49594000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr12:49591600-49594200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr12:49591600-49594400	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr12:49591600-49594600	Weak transcription	Primary hematopoietic stem cells	blood
13	chr12:49591600-49594600	Weak transcription	Adipose Nuclei	Adipose
14	chr12:49591600-49594600	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr12:49591600-49594800	Weak transcription	Primary B cells from cord blood	blood
16	chr12:49591600-49595800	Weak transcription	Spleen	Spleen
17	chr12:49591800-49594200	Weak transcription	Primary neutrophils fromperipheralblood	blood
18	chr12:49592200-49593400	Enhancers	NHDF-Ad	bronchial
19	chr12:49592200-49594600	Enhancers	Fetal Brain Male	brain
20	chr12:49592200-49594800	Enhancers	NHLF	lung
21	chr12:49592200-49595200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr12:49592400-49593400	Enhancers	HUES6 Cell Line	embryonic stem cell
23	chr12:49592400-49593400	Enhancers	Stomach Smooth Muscle	stomach
24	chr12:49592400-49595800	Weak transcription	Lung	lung
25	chr12:49592600-49593400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
26	chr12:49592600-49593400	Enhancers	Rectal Smooth Muscle	rectum
27	chr12:49592600-49594000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
28	chr12:49592600-49594200	Enhancers	Duodenum Smooth Muscle	Duodenum
29	chr12:49592800-49593400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr12:49592800-49593600	Enhancers	Brain Cingulate Gyrus	brain
31	chr12:49592800-49594800	Enhancers	Cortex derived primary cultured neurospheres	brain
32	chr12:49592800-49594800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr12:49592800-49594800	Weak transcription	Fetal Lung	lung
34	chr12:49592800-49595000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr12:49592800-49595000	Weak transcription	Right Atrium	heart
36	chr12:49592800-49595000	Weak transcription	K562	blood
37	chr12:49592800-49595600	Weak transcription	Fetal Stomach	stomach
38	chr12:49592800-49608600	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr12:49593000-49593400	Enhancers	HUES64 Cell Line	embryonic stem cell
40	chr12:49593000-49593400	Enhancers	Osteobl	bone
41	chr12:49593000-49594000	Weak transcription	Fetal Brain Female	brain
42	chr12:49593000-49594200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
43	chr12:49593000-49594200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr12:49593000-49594200	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr12:49593000-49594400	Weak transcription	Colon Smooth Muscle	Colon
46	chr12:49593000-49594400	Weak transcription	Hela-S3	cervix
47	chr12:49593000-49594600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr12:49593000-49594600	Weak transcription	HSMMtube	muscle
49	chr12:49593000-49594800	Enhancers	Brain Anterior Caudate	brain
50	chr12:49593000-49595000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links