Variant report

Variant	rs55769955
Chromosome Location	chr3:141548568-141548569
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:141455754..141459793-chr3:141546409..141549893,5	MCF-7	breast:
2	chr3:141548195..141550715-chr3:141563735..141566666,2	K562	blood:
3	chr3:141546349..141549180-chr3:141595509..141597123,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000114125	Chromatin interaction
ENSG00000069849	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs13065327	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13065862	0.97[EUR][1000 genomes]
rs13071985	0.86[EUR][1000 genomes]
rs13076009	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13085196	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2138790	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2681692	0.95[EUR][1000 genomes]
rs2681693	0.84[EUR][1000 genomes]
rs2681699	0.91[EUR][1000 genomes]
rs2681700	0.91[EUR][1000 genomes]
rs33928105	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34212237	0.83[EUR][1000 genomes]
rs34902798	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35026516	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35204030	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35249682	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35355622	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35652193	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35805003	0.85[EUR][1000 genomes]
rs36009541	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs56361763	0.85[EUR][1000 genomes]
rs71304105	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73226676	0.84[AMR][1000 genomes];0.97[EUR][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	nsv949709	chr3:141295050-142178144	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	nsv1013352	chr3:141541105-141870293	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141544800-141550800	Weak transcription	Right Atrium	heart
2	chr3:141547000-141549000	Enhancers	NHEK	skin
3	chr3:141547000-141550600	Enhancers	Hela-S3	cervix
4	chr3:141547200-141548600	Enhancers	Placenta	Placenta
5	chr3:141547200-141548800	Enhancers	Primary monocytes fromperipheralblood	blood
6	chr3:141547200-141549400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:141547200-141550000	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr3:141547200-141550600	Enhancers	HMEC	breast
9	chr3:141547600-141548600	Enhancers	Monocytes-CD14+_RO01746	blood
10	chr3:141548000-141550400	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr3:141548000-141550800	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr3:141548200-141549000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr3:141548200-141549600	Weak transcription	K562	blood
14	chr3:141548200-141550400	Weak transcription	Esophagus	oesophagus
15	chr3:141548200-141550600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr3:141548200-141554600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr3:141548400-141548800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr3:141548400-141548800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr3:141548400-141548800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr3:141548400-141549600	Weak transcription	HSMMtube	muscle
21	chr3:141548400-141550200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr3:141548400-141550400	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr3:141548400-141550400	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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