Variant report

Variant	rs1489581
Chromosome Location	chr4:143369780-143369781
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:143367680..143375723-chr4:143391908..143397720,10	MCF-7	breast:
2	chr4:143363779..143366801-chr4:143367868..143370229,3	K562	blood:
3	chr4:143368553..143371081-chr4:143381328..143384317,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000109452	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10008498	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10011782	0.92[CEU][hapmap];0.93[GIH][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.85[AMR][1000 genomes]
rs10015271	0.91[ASN][1000 genomes]
rs12108640	0.85[AMR][1000 genomes]
rs1391099	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1425531	0.92[CEU][hapmap];0.90[GIH][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.85[AMR][1000 genomes]
rs1425533	0.92[CEU][hapmap];0.86[TSI][hapmap]
rs1425536	0.92[CEU][hapmap]
rs1425537	0.92[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.90[JPT][hapmap];0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs17016163	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17016175	1.00[CEU][hapmap];0.91[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17016195	0.86[ASN][1000 genomes]
rs17016306	0.92[CEU][hapmap];0.86[TSI][hapmap]
rs1817970	0.92[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1834391	0.88[AMR][1000 genomes]
rs2113997	0.92[CEU][hapmap];0.86[TSI][hapmap]
rs2322795	0.92[CEU][hapmap];0.81[CHB][hapmap];0.85[JPT][hapmap];0.92[AMR][1000 genomes]
rs2874841	0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2874865	0.85[AMR][1000 genomes]
rs28822497	0.83[AMR][1000 genomes]
rs3844178	0.86[AMR][1000 genomes]
rs3863128	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3913163	1.00[CEU][hapmap];0.91[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3913164	0.81[CHD][hapmap];0.85[JPT][hapmap];0.86[ASN][1000 genomes]
rs3913165	0.89[ASN][1000 genomes]
rs4956444	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4975308	0.91[AMR][1000 genomes]
rs713071	0.86[AMR][1000 genomes]
rs7662794	0.87[CHB][hapmap];0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs7672965	1.00[CEU][hapmap];0.84[GIH][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs7695918	0.84[JPT][hapmap];0.85[ASN][1000 genomes]
rs9308151	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs976564	0.85[AMR][1000 genomes]
rs979511	0.81[CHD][hapmap];0.84[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv498005	chr4:142515689-143502988	Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv830100	chr4:143216951-143393305	Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:143351200-143371200	Weak transcription	Pancreas	Pancrea
2	chr4:143357400-143371200	Weak transcription	Aorta	Aorta
3	chr4:143367000-143371000	Weak transcription	Psoas Muscle	Psoas
4	chr4:143367000-143392600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr4:143368200-143371200	Weak transcription	Fetal Heart	heart
6	chr4:143368200-143373400	Weak transcription	HSMMtube	muscle
7	chr4:143368600-143373400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr4:143369200-143372800	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr4:143369200-143410600	Weak transcription	Primary hematopoietic stem cells	blood
10	chr4:143369400-143371000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr4:143369400-143373400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr4:143369400-143376400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr4:143369600-143369800	Enhancers	Primary T killer memory cells from peripheral blood	blood
14	chr4:143369600-143370200	Enhancers	HUES48 Cell Line	embryonic stem cell

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