Variant report

Variant	rs60328378
Chromosome Location	chr3:78896838-78896839
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:78887158..78889804-chr3:78895316..78898187,2	MCF-7	breast:
2	chr3:78896551..78898396-chr3:79065957..79069291,3	MCF-7	breast:
3	chr3:78896368..78899171-chr3:78904358..78907500,3	MCF-7	breast:
4	chr3:78878304..78880959-chr3:78895079..78897544,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169855	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs62257507	0.83[ASN][1000 genomes]
rs62257508	0.88[ASN][1000 genomes]
rs62257510	0.95[ASN][1000 genomes]
rs62257511	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72896433	0.86[AFR][1000 genomes]

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	nsv1010804	chr3:78739648-79087470	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv533681	chr3:78750924-79017336	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:78889400-78898800	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr3:78889400-78899000	Weak transcription	Brain Hippocampus Middle	brain
3	chr3:78892600-78897600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:78893600-78900000	Enhancers	HepG2	liver
5	chr3:78895000-78897400	Weak transcription	Liver	Liver
6	chr3:78895400-78897000	Enhancers	HMEC	breast
7	chr3:78895800-78897000	Enhancers	HSMM	muscle
8	chr3:78895800-78897400	Enhancers	NHEK	skin
9	chr3:78896000-78897000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr3:78896000-78897200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr3:78896000-78897200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr3:78896000-78898200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr3:78896000-78899200	Weak transcription	Brain Angular Gyrus	brain
14	chr3:78896200-78897600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr3:78896200-78897600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr3:78896200-78897600	Enhancers	A549	lung
17	chr3:78896200-78898200	Enhancers	Placenta Amnion	Placenta Amnion
18	chr3:78896200-78898800	Weak transcription	Brain Substantia Nigra	brain
19	chr3:78896400-78897000	Enhancers	Fetal Stomach	stomach
20	chr3:78896400-78897800	Enhancers	HUES64 Cell Line	embryonic stem cell
21	chr3:78896400-78899200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr3:78896600-78897600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr3:78896600-78897800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr3:78896600-78897800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr3:78896600-78898600	Enhancers	Fetal Lung	lung
26	chr3:78896600-78904200	Weak transcription	Colon Smooth Muscle	Colon
27	chr3:78896600-78908400	Weak transcription	Osteobl	bone
28	chr3:78896800-78897800	Weak transcription	Brain Cingulate Gyrus	brain

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