Variant report

Variant	rs6441028
Chromosome Location	chr3:155624605-155624606
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:155621101..155623205-chr3:155624175..155626500,2	MCF-7	breast:
2	chr3:155624319..155626446-chr3:155627585..155631330,3	K562	blood:
3	chr3:155601596..155603326-chr3:155623926..155626265,2	MCF-7	breast:
4	chr3:155570026..155573228-chr3:155624402..155627328,3	K562	blood:
5	chr3:155459217..155461386-chr3:155623332..155624917,2	K562	blood:

Variant related genes	Relation type
ENSG00000169359	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10804773	1.00[CHB][hapmap];0.86[JPT][hapmap];0.97[ASN][1000 genomes]
rs10804774	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10936020	1.00[CHB][hapmap];0.85[JPT][hapmap];0.99[ASN][1000 genomes]
rs1131925	0.96[CEU][hapmap];0.91[CHB][hapmap];0.84[CHD][hapmap];0.93[GIH][hapmap];0.81[JPT][hapmap];0.91[MEX][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11714133	0.98[ASN][1000 genomes]
rs13059611	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13091683	0.88[ASN][1000 genomes]
rs2054878	0.87[ASN][1000 genomes]
rs2063903	0.96[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2200707	0.93[CHD][hapmap]
rs34337666	0.89[ASN][1000 genomes]
rs35321137	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35472369	0.87[ASN][1000 genomes]
rs3772115	0.96[ASN][1000 genomes]
rs3772116	1.00[CHB][hapmap];0.95[CHD][hapmap];0.85[JPT][hapmap];0.97[ASN][1000 genomes]
rs3821365	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4680219	0.99[ASN][1000 genomes]
rs4680223	0.93[ASN][1000 genomes]
rs66509404	0.97[ASN][1000 genomes]
rs6763830	0.85[ASN][1000 genomes]
rs6799267	0.96[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7615287	0.87[YRI][hapmap]
rs7619976	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7629523	0.86[CHB][hapmap]
rs7633168	1.00[CHB][hapmap];0.95[CHD][hapmap];0.86[JPT][hapmap];0.98[ASN][1000 genomes]
rs7643630	0.86[ASN][1000 genomes]
rs7651038	1.00[CHB][hapmap];0.93[CHD][hapmap];0.86[JPT][hapmap];0.94[ASN][1000 genomes]
rs7652005	1.00[CHB][hapmap];0.95[CHD][hapmap];0.86[JPT][hapmap];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877680	chr3:155438022-155723064	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	esv2753744	chr3:155487298-155707298	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv877681	chr3:155535670-155654017	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155590200-155643000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:155590200-155667400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:155598600-155630000	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr3:155599800-155633400	Weak transcription	Right Ventricle	heart
5	chr3:155603800-155657800	Weak transcription	Esophagus	oesophagus
6	chr3:155604400-155658600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr3:155605000-155632600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr3:155607000-155633400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr3:155607200-155656800	Weak transcription	Small Intestine	intestine
10	chr3:155607400-155625800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr3:155607400-155630600	Weak transcription	Lung	lung
12	chr3:155607400-155632600	Weak transcription	Gastric	stomach
13	chr3:155607400-155669000	Weak transcription	Pancreas	Pancrea
14	chr3:155607800-155625600	Weak transcription	Brain Germinal Matrix	brain
15	chr3:155608600-155646400	Strong transcription	Dnd41	blood
16	chr3:155608800-155630000	Weak transcription	Fetal Heart	heart
17	chr3:155608800-155632600	Weak transcription	Spleen	Spleen
18	chr3:155608800-155633400	Weak transcription	Psoas Muscle	Psoas
19	chr3:155608800-155633800	Weak transcription	Rectal Smooth Muscle	rectum
20	chr3:155608800-155654800	Weak transcription	Aorta	Aorta
21	chr3:155609000-155630000	Weak transcription	Brain Cingulate Gyrus	brain
22	chr3:155609000-155633800	Weak transcription	Stomach Mucosa	stomach
23	chr3:155609200-155657200	Weak transcription	Pancreatic Islets	Pancreatic Islet
24	chr3:155609600-155652000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr3:155609800-155627400	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr3:155610400-155631200	Strong transcription	K562	blood
27	chr3:155610600-155625600	Strong transcription	Monocytes-CD14+_RO01746	blood
28	chr3:155610800-155625600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
29	chr3:155610800-155625600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr3:155610800-155632600	Weak transcription	Colonic Mucosa	Colon
31	chr3:155610800-155638200	Strong transcription	HUES6 Cell Line	embryonic stem cell
32	chr3:155610800-155646200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr3:155610800-155646200	Strong transcription	HUES64 Cell Line	embryonic stem cell
34	chr3:155611000-155646200	Strong transcription	HUES48 Cell Line	embryonic stem cell
35	chr3:155611000-155646200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
36	chr3:155611200-155625600	Strong transcription	Primary monocytes fromperipheralblood	blood
37	chr3:155611200-155625800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr3:155611200-155631000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
39	chr3:155611200-155646200	Strong transcription	Fetal Thymus	thymus
40	chr3:155611400-155625200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr3:155611400-155626000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr3:155612400-155648600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr3:155612800-155646000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr3:155613000-155625000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr3:155613400-155625200	Weak transcription	Ovary	ovary
46	chr3:155614400-155635800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr3:155614800-155625000	Strong transcription	HMEC	breast
48	chr3:155614800-155625600	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr3:155615000-155625600	Strong transcription	Primary T helper cells PMA-I stimulated	--
50	chr3:155615000-155627000	Strong transcription	GM12878-XiMat	blood

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