Variant report

Variant	rs58998344
Chromosome Location	chr9:78982910-78982911
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	chr9:78981679..78983727-chr9:78987229..78989632,2	MCF-7	breast:

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11144860	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11144861	0.87[AFR][1000 genomes]
rs11791134	0.84[EUR][1000 genomes]
rs13284503	0.84[EUR][1000 genomes]
rs13286468	0.84[EUR][1000 genomes]
rs13289362	0.84[EUR][1000 genomes]
rs13290389	0.84[EUR][1000 genomes]
rs13291010	0.84[EUR][1000 genomes]
rs13292857	0.84[EUR][1000 genomes]
rs13295158	0.84[EUR][1000 genomes]
rs13298404	0.84[EUR][1000 genomes]
rs13299207	0.84[EUR][1000 genomes]
rs17721472	0.83[EUR][1000 genomes]
rs17777982	0.83[EUR][1000 genomes]
rs34037675	0.84[EUR][1000 genomes]
rs34046058	0.84[EUR][1000 genomes]
rs34283683	0.84[EUR][1000 genomes]
rs34307519	0.84[EUR][1000 genomes]
rs34380148	0.84[EUR][1000 genomes]
rs34434749	0.84[EUR][1000 genomes]
rs34571197	0.84[EUR][1000 genomes]
rs34695412	0.84[EUR][1000 genomes]
rs34922670	0.84[EUR][1000 genomes]
rs34990453	0.84[EUR][1000 genomes]
rs35012067	0.84[EUR][1000 genomes]
rs35031885	0.84[EUR][1000 genomes]
rs35089043	0.84[EUR][1000 genomes]
rs35141782	0.81[EUR][1000 genomes]
rs35171014	0.84[EUR][1000 genomes]
rs35207397	0.84[EUR][1000 genomes]
rs35242982	0.84[EUR][1000 genomes]
rs35363570	0.84[EUR][1000 genomes]
rs35800025	0.84[EUR][1000 genomes]
rs35968404	0.84[EUR][1000 genomes]
rs55686215	0.85[AFR][1000 genomes]
rs7046651	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs71509867	0.84[EUR][1000 genomes]
rs71509868	0.84[EUR][1000 genomes]
rs71509870	0.84[EUR][1000 genomes]
rs71509872	0.84[EUR][1000 genomes]
rs71509873	0.84[EUR][1000 genomes]
rs71509874	0.84[EUR][1000 genomes]
rs71509875	0.84[EUR][1000 genomes]
rs71509878	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869152	chr9:78742197-79583399	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv931033	chr9:78850330-79366454	Genic enhancers Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv893478	chr9:78933874-79101006	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription 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 miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv893479	chr9:78971253-79275226	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:78964400-78986400	Weak transcription	Colonic Mucosa	Colon
2	chr9:78969200-78988000	Weak transcription	Aorta	Aorta
3	chr9:78978600-78983800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr9:78978800-78987000	Weak transcription	Small Intestine	intestine
5	chr9:78979400-78986800	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr9:78980200-78983200	Weak transcription	Fetal Intestine Large	intestine
7	chr9:78980200-78983400	Weak transcription	Fetal Intestine Small	intestine
8	chr9:78980200-78983600	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr9:78980400-78986800	Weak transcription	HSMM	muscle
10	chr9:78980400-78987000	Weak transcription	HSMMtube	muscle
11	chr9:78980400-78990000	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr9:78980600-78984400	Weak transcription	Fetal Heart	heart
13	chr9:78981200-78986800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr9:78981400-78983800	Weak transcription	HepG2	liver
15	chr9:78981400-78984800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr9:78981600-78983800	Weak transcription	Stomach Mucosa	stomach
17	chr9:78981600-78988000	Weak transcription	K562	blood
18	chr9:78981800-78983800	Weak transcription	A549	lung
19	chr9:78982000-78983200	Weak transcription	Duodenum Mucosa	Duodenum
20	chr9:78982000-78984400	Weak transcription	Hela-S3	cervix

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