Variant report

Variant	rs28484692
Chromosome Location	chr4:99125912-99125913
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:99118953..99122803-chr4:99123376..99126878,4	MCF-7	breast:
2	chr4:99120152..99122281-chr4:99124783..99127768,2	K562	blood:

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10005811	0.85[ASN][1000 genomes]
rs10006820	0.85[ASN][1000 genomes]
rs10018670	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10028275	0.85[ASN][1000 genomes]
rs10028373	0.85[ASN][1000 genomes]
rs10029454	0.85[ASN][1000 genomes]
rs10470895	0.85[ASN][1000 genomes]
rs10470952	0.85[ASN][1000 genomes]
rs12498437	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12498745	0.85[ASN][1000 genomes]
rs12499530	0.85[ASN][1000 genomes]
rs12500533	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12501974	0.85[ASN][1000 genomes]
rs12503117	0.85[ASN][1000 genomes]
rs12508445	0.85[ASN][1000 genomes]
rs12510670	0.93[ASN][1000 genomes]
rs12512117	0.85[ASN][1000 genomes]
rs1453344	0.85[ASN][1000 genomes]
rs1453345	0.85[ASN][1000 genomes]
rs1580065	0.85[ASN][1000 genomes]
rs1580066	0.85[ASN][1000 genomes]
rs17027330	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17027331	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17027339	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17027386	0.85[ASN][1000 genomes]
rs17027412	0.85[ASN][1000 genomes]
rs17027449	0.85[ASN][1000 genomes]
rs17027452	0.85[ASN][1000 genomes]
rs1840152	0.98[AFR][1000 genomes]
rs1840153	0.98[AFR][1000 genomes]
rs2042653	0.85[ASN][1000 genomes]
rs2042654	0.85[ASN][1000 genomes]
rs2081490	0.85[ASN][1000 genomes]
rs2194896	0.85[ASN][1000 genomes]
rs28409461	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28470922	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28472839	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28536684	0.85[ASN][1000 genomes]
rs28539805	0.94[AFR][1000 genomes]
rs28540371	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28603037	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28612663	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28613236	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28644420	0.85[ASN][1000 genomes]
rs28703816	0.85[ASN][1000 genomes]
rs28715883	0.85[ASN][1000 genomes]
rs3974886	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4557264	0.85[ASN][1000 genomes]
rs4699333	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4699334	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4699335	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4699336	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4699338	0.85[ASN][1000 genomes]
rs4699614	0.85[ASN][1000 genomes]
rs4699616	0.93[ASN][1000 genomes]
rs4699617	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55758425	0.82[AFR][1000 genomes]
rs6811422	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6814081	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6814168	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6820913	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6821608	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72894301	0.81[ASN][1000 genomes]
rs72898360	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72898390	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72898391	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7663435	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7670303	0.98[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7680467	0.87[AFR][1000 genomes]
rs7683964	0.85[ASN][1000 genomes]
rs7692963	0.85[ASN][1000 genomes]
rs7695463	0.85[ASN][1000 genomes]
rs890207	0.85[ASN][1000 genomes]
rs919027	0.85[ASN][1000 genomes]
rs919028	0.85[ASN][1000 genomes]
rs9990962	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529623	chr4:98501338-99460166	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
2	nsv1000956	chr4:98732458-99178588	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1001570	chr4:98976239-99239838	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv879650	chr4:99057457-99172232	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv461595	chr4:99065480-99172175	Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv594939	chr4:99065480-99172175	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv470061	chr4:99078105-99160699	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv1004616	chr4:99085875-99308901	Genic enhancers Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
9	esv2763801	chr4:99094892-99413853	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
10	esv2754250	chr4:99094922-99527122	Strong transcription Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
11	nsv879651	chr4:99105055-99441349	Weak transcription Genic enhancers Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
12	nsv879652	chr4:99125659-99303633	Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:99123200-99131400	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr4:99124200-99126200	Enhancers	Primary hematopoietic stem cells	blood
3	chr4:99124600-99126000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr4:99125200-99129800	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr4:99125400-99126400	Enhancers	Primary B cells from peripheral blood	blood
6	chr4:99125600-99126000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr4:99125800-99126400	Enhancers	GM12878-XiMat	blood
8	chr4:99125800-99126600	Enhancers	Primary B cells from cord blood	blood

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