Variant report

Variant	rs42090
Chromosome Location	chr7:27705043-27705044
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:27702844..27705316-chr7:27782990..27784557,2	K562	blood:
2	chr7:27702189..27703735-chr7:27703951..27706256,2	MCF-7	breast:
3	chr7:27699948..27706867-chr7:27775418..27784557,21	K562	blood:
4	chr7:27704178..27705871-chr7:27706001..27707559,2	MCF-7	breast:
5	chr7:27700432..27708426-chr7:27777901..27782637,20	K562	blood:
6	chr7:27702921..27706495-chr7:27708435..27711221,3	K562	blood:
7	chr7:27704274..27706195-chr7:27778944..27780462,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000229893	Chromatin interaction
ENSG00000106049	Chromatin interaction
ENSG00000106052	Chromatin interaction

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs1014372	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs10249314	1.00[CEU][hapmap];0.80[AMR][1000 genomes]
rs1029604	0.80[CEU][hapmap];0.83[AMR][1000 genomes]
rs11540483	0.80[AMR][1000 genomes]
rs11761718	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs11761773	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11762056	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs11764419	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11764624	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs11765792	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11768533	0.80[EUR][1000 genomes]
rs11771265	0.80[EUR][1000 genomes]
rs11772163	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs11773626	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1468443	0.83[AMR][1000 genomes]
rs17607155	0.82[EUR][1000 genomes]
rs17607303	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs17680908	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs17683094	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2158892	0.88[CEU][hapmap];0.83[AMR][1000 genomes]
rs41326151	0.91[CEU][hapmap];0.86[EUR][1000 genomes]
rs42093	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs42095	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs42096	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs42097	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs42114	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4719905	0.83[AMR][1000 genomes]
rs4722736	0.80[CEU][hapmap];0.83[AMR][1000 genomes]
rs4722738	0.80[AMR][1000 genomes]
rs57863648	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs59505903	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs60247061	0.80[EUR][1000 genomes]
rs60326970	0.83[EUR][1000 genomes]
rs61659103	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62454846	0.80[EUR][1000 genomes]
rs62454847	0.80[EUR][1000 genomes]
rs62454852	0.82[EUR][1000 genomes]
rs62454853	0.82[EUR][1000 genomes]
rs62454854	0.82[EUR][1000 genomes]
rs62454909	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62454911	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62454912	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62454913	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62456899	0.83[EUR][1000 genomes]
rs62456903	0.87[EUR][1000 genomes]
rs62456949	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62456952	0.86[EUR][1000 genomes]
rs62456953	0.86[EUR][1000 genomes]
rs6462044	0.80[AMR][1000 genomes]
rs6462045	0.83[AMR][1000 genomes]
rs68015840	0.97[EUR][1000 genomes]
rs6945079	0.80[EUR][1000 genomes]
rs6946582	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6960451	0.80[AMR][1000 genomes]
rs6969516	0.80[AMR][1000 genomes]
rs6970160	0.87[CEU][hapmap];0.83[AMR][1000 genomes]
rs6978979	0.80[EUR][1000 genomes]
rs73073375	0.80[AMR][1000 genomes]
rs73073377	0.80[AMR][1000 genomes]
rs73073379	0.80[AMR][1000 genomes]
rs73073380	0.80[AMR][1000 genomes]
rs73073387	0.80[AMR][1000 genomes]
rs73073388	0.80[AMR][1000 genomes]
rs73073393	0.80[AMR][1000 genomes]
rs73075112	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73075307	0.80[AMR][1000 genomes]
rs73075310	0.80[AMR][1000 genomes]
rs73075311	0.80[AMR][1000 genomes]
rs73075322	0.80[AMR][1000 genomes]
rs73075325	0.80[AMR][1000 genomes]
rs73075329	0.80[AMR][1000 genomes]
rs73075331	0.80[AMR][1000 genomes]
rs73075354	0.80[AMR][1000 genomes]
rs73075359	0.80[AMR][1000 genomes]
rs73078776	0.80[AMR][1000 genomes]
rs73078778	0.80[AMR][1000 genomes]
rs7456595	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7790914	0.80[CEU][hapmap]
rs7795207	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs7803464	0.82[EUR][1000 genomes]
rs7807729	0.80[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949025	chr7:27578167-28075172	Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:27703200-27708200	Weak transcription	Colon Smooth Muscle	Colon
2	chr7:27703400-27705400	Enhancers	Placenta	Placenta
3	chr7:27703400-27706200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr7:27703600-27708000	Weak transcription	Right Atrium	heart
5	chr7:27704200-27705200	Enhancers	K562	blood
6	chr7:27704200-27711000	Weak transcription	Duodenum Mucosa	Duodenum
7	chr7:27705000-27710000	Weak transcription	HepG2	liver

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