Variant report

Variant	rs13141925
Chromosome Location	chr4:143642099-143642100
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:143637297..143639595-chr4:143640905..143643324,3	MCF-7	breast:
2	chr4:143393131..143399799-chr4:143636317..143645681,15	MCF-7	breast:
3	chr4:143392644..143398601-chr4:143638137..143645320,14	MCF-7	breast:
4	chr4:143535273..143539133-chr4:143641663..143644812,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000109452	Chromatin interaction

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10024696	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10857399	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11100754	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11100760	0.88[EUR][1000 genomes]
rs11933763	0.87[EUR][1000 genomes]
rs12233703	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12640389	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12644329	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13117185	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13435565	0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1373031	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1373032	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1443183	0.91[EUR][1000 genomes]
rs1443185	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1443186	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1465962	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17016777	0.90[EUR][1000 genomes]
rs179508	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1822360	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1822361	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1838082	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1867214	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs191762	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1961836	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1965828	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2165819	0.87[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs2589994	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28420913	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3113593	0.82[EUR][1000 genomes]
rs331939	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs331940	0.90[EUR][1000 genomes]
rs331942	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs331948	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs331949	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs331950	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs331951	0.82[EUR][1000 genomes]
rs331957	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs331963	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs331966	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34442253	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4690699	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4690726	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6537124	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6537127	0.89[EUR][1000 genomes]
rs6813458	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6816424	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6819498	0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6831927	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6844306	0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6845583	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6852570	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7376475	0.86[EUR][1000 genomes]
rs7667183	0.90[EUR][1000 genomes]
rs966457	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[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	nsv830101	chr4:143518810-143684392	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv595606	chr4:143631691-143729595	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv880174	chr4:143639498-143848024	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:143630800-143650200	Weak transcription	Aorta	Aorta
2	chr4:143635000-143648200	Weak transcription	Thymus	Thymus
3	chr4:143637200-143653000	Weak transcription	Left Ventricle	heart
4	chr4:143639600-143647000	Enhancers	Dnd41	blood
5	chr4:143640200-143642200	Enhancers	NHEK	skin
6	chr4:143640200-143642800	Enhancers	HMEC	breast
7	chr4:143641000-143642600	Enhancers	Muscle Satellite Cultured Cells	--
8	chr4:143641000-143642600	Enhancers	NH-A	brain
9	chr4:143641200-143642200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr4:143641400-143642400	Weak transcription	Osteobl	bone
11	chr4:143641400-143643200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr4:143641400-143646800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr4:143641400-143648400	Weak transcription	Primary T cells from cord blood	blood
14	chr4:143641600-143642200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr4:143641600-143642600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr4:143641600-143642800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr4:143641600-143643600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr4:143641600-143652800	Weak transcription	Primary hematopoietic stem cells	blood
19	chr4:143641800-143646200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr4:143642000-143644000	Enhancers	Fetal Heart	heart

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