Variant report

Variant	rs9827728
Chromosome Location	chr3:133971558-133971559
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:133961848..133963508-chr3:133970974..133972912,2	K562	blood:
2	chr3:133969851..133972992-chr3:133976680..133979913,3	K562	blood:
3	chr3:133970647..133972912-chr3:133975711..133978069,2	MCF-7	breast:
4	chr3:133969328..133972317-chr3:134030794..134032589,3	MCF-7	breast:
5	chr3:133970115..133972265-chr3:133986843..133989271,2	MCF-7	breast:
6	chr3:133970945..133973560-chr3:133978440..133980451,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000240006	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1131262	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11707763	0.94[ASN][1000 genomes]
rs11915143	0.94[ASN][1000 genomes]
rs35322473	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3890774	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4072180	0.81[ASN][1000 genomes]
rs4682664	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4682666	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4682668	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4682669	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55689708	0.90[ASN][1000 genomes]
rs56073423	0.95[AFR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6439465	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6439466	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6650893	0.95[ASN][1000 genomes]
rs6762690	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6776502	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6780295	0.95[ASN][1000 genomes]
rs6808085	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7355922	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7609611	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7622046	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9283588	0.80[ASN][1000 genomes]
rs9818714	0.98[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9823873	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9825808	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9832732	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9839819	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9853568	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9856298	0.98[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9856792	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9858069	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9858450	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9858707	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3522171	chr3:133889405-134156571	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	esv3522172	chr3:133889405-134156571	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	esv1794616	chr3:133949713-133973731	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
4	esv1798974	chr3:133949713-133973731	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
5	esv1802675	chr3:133949713-133973731	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
6	esv1815799	chr3:133949713-133973731	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
7	esv1819695	chr3:133949713-133973731	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
8	esv1822126	chr3:133949713-133973731	Flanking Active TSS Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
9	esv1839030	chr3:133949713-133973731	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
10	esv1799165	chr3:133959746-133973731	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
11	esv1803106	chr3:133959746-133973731	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
12	esv1792549	chr3:133969361-133973731	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
13	esv1798144	chr3:133969361-133973731	Active TSS Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
14	esv1838610	chr3:133969361-133973731	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
15	esv1842254	chr3:133969361-133973731	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133970000-133972400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:133970200-133971600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
3	chr3:133970200-133971600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr3:133970200-133971600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr3:133970200-133971600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr3:133970200-133971600	Weak transcription	GM12878-XiMat	blood
7	chr3:133970200-133971800	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr3:133970200-133971800	Enhancers	Aorta	Aorta
9	chr3:133970200-133972000	Enhancers	Primary T cells fromperipheralblood	blood
10	chr3:133970200-133972000	Enhancers	Fetal Muscle Trunk	muscle
11	chr3:133970200-133972200	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr3:133970200-133972200	Enhancers	Placenta	Placenta
13	chr3:133970200-133972400	Enhancers	Fetal Muscle Leg	muscle
14	chr3:133970200-133972400	Enhancers	Fetal Stomach	stomach
15	chr3:133970200-133972600	Weak transcription	Monocytes-CD14+_RO01746	blood
16	chr3:133970200-133972800	Enhancers	H1 Cell Line	embryonic stem cell
17	chr3:133970200-133972800	Weak transcription	HMEC	breast
18	chr3:133970200-133973200	Enhancers	HUES6 Cell Line	embryonic stem cell
19	chr3:133970200-133977000	Weak transcription	Colonic Mucosa	Colon
20	chr3:133970200-133977600	Weak transcription	Rectal Smooth Muscle	rectum
21	chr3:133970400-133971800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr3:133970400-133971800	Enhancers	Colon Smooth Muscle	Colon
23	chr3:133970400-133971800	Enhancers	Ovary	ovary
24	chr3:133970400-133972000	Enhancers	iPS-18 Cell Line	embryonic stem cell
25	chr3:133970400-133972000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr3:133970400-133972000	Enhancers	HSMMtube	muscle
27	chr3:133970400-133972200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr3:133970400-133972200	Enhancers	iPS-15b Cell Line	embryonic stem cell
29	chr3:133970400-133972200	Enhancers	Fetal Thymus	thymus
30	chr3:133970400-133972800	Enhancers	ES-I3 Cell Line	embryonic stem cell
31	chr3:133970400-133972800	Weak transcription	Primary hematopoietic stem cells	blood
32	chr3:133970400-133973200	Enhancers	H9 Cell Line	embryonic stem cell
33	chr3:133970400-133973800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr3:133970600-133971600	Flanking Active TSS	Stomach Smooth Muscle	stomach
35	chr3:133970600-133971800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr3:133970600-133971800	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr3:133970600-133972200	Weak transcription	Primary monocytes fromperipheralblood	blood
38	chr3:133970600-133972800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr3:133970600-133972800	Enhancers	Fetal Heart	heart
40	chr3:133970600-133973200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr3:133970800-133971800	Enhancers	Fetal Lung	lung
42	chr3:133970800-133972000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr3:133970800-133972000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr3:133970800-133972000	Enhancers	HUES48 Cell Line	embryonic stem cell
45	chr3:133970800-133972800	Weak transcription	Primary B cells from peripheral blood	blood
46	chr3:133970800-133977600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr3:133971000-133971800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
48	chr3:133971000-133972200	Enhancers	iPS-20b Cell Line	embryonic stem cell
49	chr3:133971000-133973000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
50	chr3:133971000-133973000	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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