Variant report

Variant	rs17023928
Chromosome Location	chr4:148752042-148752043
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:148651674..148654444-chr4:148747650..148753714,7	MCF-7	breast:
2	chr4:148651228..148655944-chr4:148751568..148754818,6	MCF-7	breast:
3	chr4:148661332..148664177-chr4:148751893..148754827,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000071205	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10004850	1.00[ASN][1000 genomes]
rs10005192	0.82[CEU][hapmap]
rs10007231	0.93[JPT][hapmap];0.94[ASN][1000 genomes]
rs10018820	1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10018903	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10021936	0.93[ASN][1000 genomes]
rs10022691	0.94[ASN][1000 genomes]
rs10023057	0.86[JPT][hapmap]
rs10025684	0.96[ASN][1000 genomes]
rs10029385	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10030513	0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1013842	0.86[JPT][hapmap]
rs10461235	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs10519917	0.82[CEU][hapmap]
rs11724795	1.00[CEU][hapmap];0.92[CHB][hapmap];0.85[JPT][hapmap];0.87[EUR][1000 genomes]
rs11733409	0.86[JPT][hapmap]
rs11935450	0.82[CEU][hapmap]
rs11935510	0.82[CEU][hapmap]
rs11935620	0.82[CEU][hapmap]
rs12641291	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12647314	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12650219	1.00[CEU][hapmap]
rs13116821	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13129747	1.00[ASN][1000 genomes]
rs13434396	0.94[ASN][1000 genomes]
rs1347596	0.82[ASN][1000 genomes]
rs1436489	0.93[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1436490	0.97[ASN][1000 genomes]
rs1469865	0.86[JPT][hapmap]
rs17023870	0.82[CEU][hapmap]
rs17023919	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17023995	0.92[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2043644	1.00[CEU][hapmap]
rs28662484	0.95[ASN][1000 genomes]
rs35115631	1.00[ASN][1000 genomes]
rs4240338	1.00[CEU][hapmap];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4240339	1.00[CEU][hapmap];0.84[CHB][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4419463	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4835461	0.92[CHB][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs4835463	0.85[JPT][hapmap]
rs62330695	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs66488204	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6839440	0.89[ASN][1000 genomes]
rs6846899	0.86[JPT][hapmap]
rs7654433	0.86[JPT][hapmap]
rs7655236	0.82[CEU][hapmap];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7666127	1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs893022	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.86[EUR][1000 genomes]
rs893024	0.86[JPT][hapmap]
rs9995896	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9996108	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9996209	0.80[EUR][1000 genomes];0.90[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	nsv1028958	chr4:148377752-148793485	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv498083	chr4:148519825-148917583	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
3	nsv880243	chr4:148735644-148879583	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:148734600-148761000	Weak transcription	Fetal Kidney	kidney
2	chr4:148737200-148758200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr4:148737800-148755400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr4:148737800-148757000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr4:148737800-148782200	Weak transcription	Thymus	Thymus
6	chr4:148741400-148754000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr4:148743200-148782200	Weak transcription	Fetal Intestine Large	intestine
8	chr4:148743600-148752200	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr4:148743600-148755400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr4:148746200-148754000	Weak transcription	Brain Substantia Nigra	brain
11	chr4:148746400-148768000	Weak transcription	Fetal Intestine Small	intestine
12	chr4:148746600-148753400	Enhancers	Fetal Heart	heart
13	chr4:148747400-148753000	Enhancers	HSMMtube	muscle
14	chr4:148747600-148752400	Weak transcription	Duodenum Mucosa	Duodenum
15	chr4:148747800-148752200	Weak transcription	GM12878-XiMat	blood
16	chr4:148747800-148754600	Enhancers	Skeletal Muscle Female	skeletal muscle
17	chr4:148749000-148752400	Enhancers	Psoas Muscle	Psoas
18	chr4:148749000-148753200	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr4:148749200-148752800	Enhancers	NHDF-Ad	bronchial
20	chr4:148749200-148754600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr4:148749400-148753600	Enhancers	Colon Smooth Muscle	Colon
22	chr4:148749400-148754000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr4:148749400-148754000	Enhancers	HSMM	muscle
24	chr4:148749400-148754800	Enhancers	Primary monocytes fromperipheralblood	blood
25	chr4:148749400-148754800	Enhancers	HMEC	breast
26	chr4:148749400-148758000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr4:148749600-148752800	Enhancers	Adipose Nuclei	Adipose
28	chr4:148749600-148753000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr4:148749600-148753400	Enhancers	Left Ventricle	heart
30	chr4:148749600-148753400	Enhancers	Ovary	ovary
31	chr4:148749600-148753400	Enhancers	Rectal Smooth Muscle	rectum
32	chr4:148749600-148753600	Enhancers	Fetal Muscle Leg	muscle
33	chr4:148749800-148753200	Enhancers	NHLF	lung
34	chr4:148750000-148752200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr4:148750000-148753200	Enhancers	Monocytes-CD14+_RO01746	blood
36	chr4:148750200-148753400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr4:148750400-148752400	Enhancers	Placenta Amnion	Placenta Amnion
38	chr4:148750400-148752600	Enhancers	Right Atrium	heart
39	chr4:148750400-148753200	Enhancers	Lung	lung
40	chr4:148750400-148753400	Enhancers	Aorta	Aorta
41	chr4:148750400-148753400	Enhancers	Placenta	Placenta
42	chr4:148750400-148753400	Enhancers	Sigmoid Colon	Sigmoid Colon
43	chr4:148750400-148753800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
44	chr4:148750600-148752200	Enhancers	NH-A	brain
45	chr4:148750600-148752400	Enhancers	Spleen	Spleen
46	chr4:148750600-148753200	Enhancers	HUVEC	blood vessel
47	chr4:148750600-148753400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr4:148750600-148753400	Enhancers	Duodenum Smooth Muscle	Duodenum
49	chr4:148750600-148753400	Enhancers	Esophagus	oesophagus
50	chr4:148750600-148753800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived

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