Variant report

Variant	rs58809874
Chromosome Location	chr10:21651981-21651982
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:21651394..21654068-chr10:21783988..21786683,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000222071	Chromatin interaction
ENSG00000204682	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10828238	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11012681	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11594245	0.81[ASN][1000 genomes]
rs12245880	1.00[ASN][1000 genomes]
rs1556002	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16921773	1.00[EUR][1000 genomes]
rs1927242	0.81[ASN][1000 genomes]
rs4381272	1.00[ASN][1000 genomes]
rs4448595	1.00[ASN][1000 genomes]
rs57816128	0.98[EUR][1000 genomes]
rs7068408	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7081480	0.81[ASN][1000 genomes]
rs7086407	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7091815	0.84[ASN][1000 genomes]
rs7898040	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7913493	0.94[ASN][1000 genomes]
rs7923849	0.94[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	nsv530148	chr10:21065080-21724565	Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	nsv831807	chr10:21509185-21688043	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:21639600-21652000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr10:21646800-21652000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr10:21648200-21653400	Weak transcription	Ovary	ovary
4	chr10:21648600-21652000	Weak transcription	Fetal Kidney	kidney
5	chr10:21648600-21653400	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr10:21650000-21652600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr10:21650000-21652600	Enhancers	Placenta	Placenta
8	chr10:21650200-21652000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr10:21650600-21652800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr10:21650600-21653000	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr10:21650800-21652200	Enhancers	A549	lung
12	chr10:21650800-21652800	Enhancers	NHEK	skin
13	chr10:21651000-21652000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr10:21651000-21652000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr10:21651000-21652000	Enhancers	Hela-S3	cervix
16	chr10:21651000-21652200	Enhancers	Placenta Amnion	Placenta Amnion
17	chr10:21651000-21653600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr10:21651000-21655800	Enhancers	HMEC	breast
19	chr10:21651200-21652000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr10:21651200-21652000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr10:21651200-21652400	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr10:21651200-21654600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr10:21651400-21654600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
24	chr10:21651600-21652200	Enhancers	Lung	lung
25	chr10:21651600-21652800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr10:21651800-21652200	Enhancers	Fetal Muscle Trunk	muscle
27	chr10:21651800-21652800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr10:21651800-21652800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr10:21651800-21652800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
30	chr10:21651800-21652800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr10:21651800-21653000	Enhancers	HUES64 Cell Line	embryonic stem cell
32	chr10:21651800-21653000	Enhancers	HUVEC	blood vessel
33	chr10:21651800-21654400	Enhancers	ES-I3 Cell Line	embryonic stem cell
34	chr10:21651800-21654600	Enhancers	Fetal Muscle Leg	muscle
35	chr10:21651800-21655200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links