Variant report

Variant	rs66799800
Chromosome Location	chr1:241698043-241698044
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:241697913..241700856-chr1:241791206..241793471,2	MCF-7	breast:
2	chr1:241697671..241700441-chr1:241723434..241725631,2	K562	blood:
3	chr1:241696697..241699128-chr1:242009298..242010956,2	MCF-7	breast:
4	chr1:241698010..241700668-chr1:241801760..241804733,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000054277	Chromatin interaction
ENSG00000117009	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs16841808	0.96[ASN][1000 genomes]
rs2275162	0.91[ASN][1000 genomes]
rs3765803	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56957678	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs58766151	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs59625977	0.88[ASN][1000 genomes]
rs60043538	0.88[ASN][1000 genomes]
rs60673334	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61543265	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs61737760	0.91[ASN][1000 genomes]
rs66497254	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs66626588	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs66669018	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs6678986	0.96[ASN][1000 genomes]
rs6679186	0.96[ASN][1000 genomes]
rs6690411	0.96[ASN][1000 genomes]
rs67219057	0.88[ASN][1000 genomes]
rs67267325	0.84[ASN][1000 genomes]
rs67439618	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs67528386	0.91[ASN][1000 genomes]
rs67794990	0.91[ASN][1000 genomes]
rs68119865	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72766004	0.96[ASN][1000 genomes]
rs73135296	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv918034	chr1:241072791-242005532	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	32 gene(s)	inside rSNPs	diseases
2	nsv997966	chr1:241100739-242087629	Active TSS Genic enhancers Flanking Active TSS Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
3	nsv949442	chr1:241432051-241730054	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv1002214	chr1:241458939-242099790	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
5	nsv549460	chr1:241494578-241833287	Genic enhancers Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
6	nsv1009579	chr1:241499537-241824631	Bivalent/Poised TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
7	nsv530112	chr1:241522031-241840269	Strong transcription Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
8	nsv873368	chr1:241533392-242195928	Weak transcription Active TSS Transcr. at gene 5' and 3' Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
9	nsv873371	chr1:241667244-241747838	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv873372	chr1:241690554-242438293	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:241695600-241700000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr1:241695800-241698800	Weak transcription	Psoas Muscle	Psoas
3	chr1:241695800-241699000	Weak transcription	Fetal Lung	lung
4	chr1:241696400-241698800	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr1:241697400-241699000	Enhancers	Primary B cells from peripheral blood	blood
6	chr1:241697400-241705600	Weak transcription	Fetal Kidney	kidney
7	chr1:241697800-241699000	Weak transcription	GM12878-XiMat	blood
8	chr1:241697800-241699200	Enhancers	Liver	Liver
9	chr1:241698000-241700200	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr1:241698000-241700800	Genic enhancers	Primary B cells from cord blood	blood
11	chr1:241698000-241705400	Weak transcription	Placenta	Placenta

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