Variant report

Variant	rs62257511
Chromosome Location	chr3:78897665-78897666
allele	A/G
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:

Variant related genes	Relation type
ENSG00000169855	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs17016554	0.80[ASN][1000 genomes]
rs331159	0.85[AFR][1000 genomes]
rs60328378	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62257507	0.85[ASN][1000 genomes]
rs62257508	0.92[ASN][1000 genomes]
rs62257510	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][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:27 , 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	chr3:78893600-78900000	Enhancers	HepG2	liver
4	chr3:78896000-78898200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr3:78896000-78899200	Weak transcription	Brain Angular Gyrus	brain
6	chr3:78896200-78898200	Enhancers	Placenta Amnion	Placenta Amnion
7	chr3:78896200-78898800	Weak transcription	Brain Substantia Nigra	brain
8	chr3:78896400-78897800	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr3:78896400-78899200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr3:78896600-78897800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr3:78896600-78897800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr3:78896600-78898600	Enhancers	Fetal Lung	lung
13	chr3:78896600-78904200	Weak transcription	Colon Smooth Muscle	Colon
14	chr3:78896600-78908400	Weak transcription	Osteobl	bone
15	chr3:78896800-78897800	Weak transcription	Brain Cingulate Gyrus	brain
16	chr3:78897000-78898200	Enhancers	ES-I3 Cell Line	embryonic stem cell
17	chr3:78897000-78898200	Enhancers	HUES6 Cell Line	embryonic stem cell
18	chr3:78897200-78907200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr3:78897400-78898000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
20	chr3:78897400-78898600	Enhancers	Liver	Liver
21	chr3:78897600-78898000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr3:78897600-78898200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr3:78897600-78898200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr3:78897600-78898200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr3:78897600-78898200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr3:78897600-78898400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr3:78897600-78898400	Flanking Active TSS	A549	lung

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