Variant report

Variant	rs6432174
Chromosome Location	chr2:11274019-11274020
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MYBL2	chr2:11272477-11274028	HepG2	liver:	n/a	n/a
2	SIN3A	chr2:11272699-11274080	H1-hESC	embryonic stem cell:	n/a	chr2:11273187-11273195
3	MXI1	chr2:11272687-11274320	IMR90	lung:	n/a	chr2:11273196-11273211

No.	Distal block	Cell Line	Cell type
1	chr2:11272147..11274930-chr2:11671339..11675156,3	MCF-7	breast:
2	chr2:11271098..11275692-chr2:11293512..11297101,4	MCF-7	breast:
3	chr2:11273055..11275301-chr2:11293268..11296881,3	MCF-7	breast:
4	chr2:11273067..11276077-chr2:11294167..11297061,3	K562	blood:

Variant related genes	Relation type
ENSG00000145063	TF binding region
ENSG00000162976	Chromatin interaction
ENSG00000196208	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs11903207	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1810295	1.00[EUR][1000 genomes]
rs2102714	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4297854	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs4386295	1.00[CEU][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4446053	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs4474856	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4474857	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4476323	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs4635508	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56732337	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57447764	0.92[EUR][1000 genomes]
rs57604212	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57812764	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6432175	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6432176	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6432178	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6432179	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6432180	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs6706759	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6708309	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6713473	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6713752	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6713861	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6717010	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6717030	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6717388	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6726867	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6726924	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6727494	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6733410	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6736273	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6737928	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6753482	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6756515	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6760152	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73175630	0.84[EUR][1000 genomes]
rs73175632	0.84[EUR][1000 genomes]
rs73175633	0.84[EUR][1000 genomes]
rs73189609	1.00[EUR][1000 genomes]
rs7563857	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7564789	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7566028	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7573202	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7579736	1.00[EUR][1000 genomes]
rs7600174	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7600586	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs908276	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv520789	chr2:11259067-11312224	Weak transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:11271400-11274200	Active TSS	Brain Anterior Caudate	brain
2	chr2:11272800-11274200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
3	chr2:11272800-11274200	Active TSS	Duodenum Smooth Muscle	Duodenum
4	chr2:11272800-11274800	Active TSS	Fetal Kidney	kidney
5	chr2:11273200-11274200	Flanking Active TSS	Brain Hippocampus Middle	brain
6	chr2:11273200-11274200	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
7	chr2:11273200-11274200	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
8	chr2:11273200-11274200	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
9	chr2:11273200-11274200	Flanking Bivalent TSS/Enh	Monocytes-CD14+_RO01746	blood
10	chr2:11273200-11274800	Flanking Bivalent TSS/Enh	HepG2	liver
11	chr2:11273400-11274600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr2:11273600-11274200	Enhancers	Primary B cells from peripheral blood	blood
13	chr2:11273600-11274200	Enhancers	Fetal Heart	heart
14	chr2:11273600-11274200	Bivalent Enhancer	Fetal Thymus	thymus
15	chr2:11273600-11274200	Enhancers	Spleen	Spleen
16	chr2:11273600-11274400	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr2:11273600-11274800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr2:11273600-11277000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr2:11273600-11294400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr2:11273800-11274200	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
21	chr2:11273800-11274200	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
22	chr2:11273800-11274200	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
23	chr2:11273800-11274200	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
24	chr2:11273800-11274200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
25	chr2:11273800-11274200	Flanking Bivalent TSS/Enh	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr2:11273800-11274200	Enhancers	Breast Myoepithelial Primary Cells	Breast
27	chr2:11273800-11274200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr2:11273800-11274200	Enhancers	Liver	Liver
29	chr2:11273800-11274200	Flanking Bivalent TSS/Enh	Duodenum Mucosa	Duodenum
30	chr2:11273800-11274200	Flanking Bivalent TSS/Enh	Fetal Intestine Large	intestine
31	chr2:11273800-11274200	Enhancers	Gastric	stomach
32	chr2:11273800-11274200	Enhancers	Lung	lung
33	chr2:11273800-11274200	Enhancers	Placenta Amnion	Placenta Amnion
34	chr2:11273800-11274400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr2:11273800-11274400	Flanking Active TSS	Fetal Lung	lung
36	chr2:11273800-11274400	Bivalent Enhancer	Placenta	Placenta
37	chr2:11274000-11274200	Flanking Bivalent TSS/Enh	ES-I3 Cell Line	embryonic stem cell
38	chr2:11274000-11274200	Enhancers	H1 Cell Line	embryonic stem cell
39	chr2:11274000-11274200	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr2:11274000-11274200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr2:11274000-11274200	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
42	chr2:11274000-11274200	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
43	chr2:11274000-11274200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr2:11274000-11274200	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
45	chr2:11274000-11274200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr2:11274000-11274200	Bivalent Enhancer	Muscle Satellite Cultured Cells	--
47	chr2:11274000-11274200	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr2:11274000-11274200	Bivalent/Poised TSS	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr2:11274000-11274200	Bivalent/Poised TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr2:11274000-11274200	Enhancers	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links