Variant report

Variant	rs13065463
Chromosome Location	chr3:61662996-61662997
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:61660311..61663274-chr3:61689042..61690595,2	MCF-7	breast:
2	chr3:61662551..61664773-chr3:61681369..61683505,2	MCF-7	breast:
3	chr3:61621266..61623039-chr3:61662503..61664613,2	MCF-7	breast:
4	chr3:61614514..61617033-chr3:61662536..61664540,2	MCF-7	breast:
5	chr3:61662114..61664552-chr3:61693458..61695592,2	MCF-7	breast:
6	chr17:56735140..56737810-chr3:61660499..61663405,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000202077	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs13061339	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13074883	1.00[CHB][hapmap]
rs17628015	1.00[CHB][hapmap]
rs34451804	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35680956	1.00[ASN][1000 genomes]
rs55869022	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71619265	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7649178	0.93[CEU][hapmap];1.00[CHB][hapmap];0.82[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1008615	chr3:61455419-61679037	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv1001611	chr3:61598148-61686809	Genic enhancers Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1000158	chr3:61598562-61682888	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv834712	chr3:61612540-61770232	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	nsv876871	chr3:61648636-61725778	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv1013884	chr3:61658915-61718573	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription ZNF genes & repeats	Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13065463	FEZF2	cis	cerebellum	SCAN

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:61652200-61664800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:61653400-61667200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr3:61654200-61668200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr3:61655600-61663600	Weak transcription	Fetal Lung	lung
5	chr3:61655600-61666000	Weak transcription	Brain Angular Gyrus	brain
6	chr3:61655600-61666800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr3:61655600-61666800	Weak transcription	HSMM	muscle
8	chr3:61655800-61663600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr3:61655800-61668400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr3:61655800-61668400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr3:61656000-61663800	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr3:61656000-61671000	Weak transcription	Right Ventricle	heart
13	chr3:61656600-61665800	Weak transcription	Left Ventricle	heart
14	chr3:61656800-61663000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr3:61656800-61663600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr3:61656800-61663600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr3:61658600-61669200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr3:61658800-61663600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr3:61658800-61669800	Weak transcription	Ovary	ovary
20	chr3:61660200-61668800	Weak transcription	Psoas Muscle	Psoas
21	chr3:61660800-61663400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr3:61660800-61664600	Weak transcription	Brain Anterior Caudate	brain
23	chr3:61661000-61663200	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr3:61661000-61663400	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr3:61661200-61663600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr3:61661400-61663000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
27	chr3:61662400-61664000	Enhancers	H9 Cell Line	embryonic stem cell
28	chr3:61662400-61672000	Enhancers	iPS-18 Cell Line	embryonic stem cell
29	chr3:61662600-61663600	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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