Variant report

Variant	rs28373144
Chromosome Location	chr1:153471568-153471569
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:153320974..153341807-chr1:153456098..153486349,81	MCF-7	breast:
2	chr1:153460521..153462645-chr1:153469945..153471871,2	MCF-7	breast:
3	chr1:153469520..153472255-chr1:153472770..153474723,2	MCF-7	breast:
4	chr1:153466147..153468573-chr1:153470167..153472287,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163218	Chromatin interaction
ENSG00000263841	Chromatin interaction
ENSG00000163220	Chromatin interaction

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs11488667	1.00[EUR][1000 genomes]
rs11973	1.00[EUR][1000 genomes]
rs16835357	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16835362	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16835371	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16835373	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16835375	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16835379	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16835389	1.00[EUR][1000 genomes]
rs16835409	1.00[EUR][1000 genomes]
rs16835413	1.00[EUR][1000 genomes]
rs16835417	1.00[EUR][1000 genomes]
rs2104500	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2230870	1.00[EUR][1000 genomes]
rs28407716	1.00[EUR][1000 genomes]
rs28442251	1.00[EUR][1000 genomes]
rs28451322	1.00[EUR][1000 genomes]
rs28456342	1.00[EUR][1000 genomes]
rs28485860	1.00[EUR][1000 genomes]
rs28510499	1.00[EUR][1000 genomes]
rs28578863	1.00[EUR][1000 genomes]
rs28587171	1.00[EUR][1000 genomes]
rs28605603	1.00[EUR][1000 genomes]
rs28634320	1.00[EUR][1000 genomes]
rs28645589	1.00[EUR][1000 genomes]
rs28648662	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28690872	1.00[EUR][1000 genomes]
rs28694652	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28709866	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28784102	1.00[EUR][1000 genomes]
rs3014827	1.00[EUR][1000 genomes]
rs3856025	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56140059	1.00[EUR][1000 genomes]
rs56255753	1.00[EUR][1000 genomes]
rs56401460	1.00[EUR][1000 genomes]
rs58529054	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59209384	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs59617976	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60219287	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60460123	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs61038462	1.00[EUR][1000 genomes]
rs61131911	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs61148582	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73009954	1.00[EUR][1000 genomes]
rs73011738	1.00[EUR][1000 genomes]
rs73020460	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73020461	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73020464	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73020467	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73020468	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73020471	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73020473	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73020474	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73020478	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73020479	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73020496	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73020497	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73024502	1.00[EUR][1000 genomes]
rs73026308	1.00[EUR][1000 genomes]
rs730347	1.00[EUR][1000 genomes]
rs74115477	1.00[EUR][1000 genomes]
rs74115478	1.00[EUR][1000 genomes]
rs74115489	1.00[EUR][1000 genomes]
rs746425	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7518794	1.00[EUR][1000 genomes]
rs7528738	1.00[EUR][1000 genomes]
rs7543851	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010488	chr1:152901263-153670972	Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
2	nsv535171	chr1:152901263-153670972	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
3	nsv1002705	chr1:153307852-153525589	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
4	nsv831603	chr1:153405842-153576143	Transcr. at gene 5' and 3' Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	148 gene(s)	inside rSNPs	diseases
5	nsv1007306	chr1:153413827-153541798	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	146 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:153462800-153479000	Weak transcription	Right Atrium	heart
2	chr1:153467200-153478000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr1:153468400-153479000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr1:153471000-153471800	Enhancers	Fetal Muscle Leg	muscle
5	chr1:153471000-153471800	Enhancers	Ovary	ovary
6	chr1:153471200-153472400	Enhancers	Aorta	Aorta
7	chr1:153471200-153472400	Enhancers	Fetal Lung	lung
8	chr1:153471400-153471800	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr1:153471400-153471800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr1:153471400-153471800	Enhancers	Fetal Stomach	stomach

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