Variant report

Variant	rs28420290
Chromosome Location	chr4:106882594-106882595
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:106880865..106883226-chr4:106885704..106887688,2	MCF-7	breast:
2	chr4:106875672..106878254-chr4:106880438..106883058,3	K562	blood:
3	chr4:106868581..106872144-chr4:106880844..106883736,4	K562	blood:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10033065	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10856978	0.91[EUR][1000 genomes]
rs11930350	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12511099	0.91[EUR][1000 genomes]
rs13103583	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13107002	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13120676	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28397037	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs28408688	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28480231	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs28523884	0.80[AFR][1000 genomes]
rs28530644	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs28676291	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs28680557	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs28680976	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs4074126	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4074127	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4074792	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4235416	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4264830	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4340795	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4380529	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4380530	0.82[AMR][1000 genomes]
rs4394002	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4403054	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4443288	0.91[EUR][1000 genomes]
rs4488941	0.89[EUR][1000 genomes]
rs4507363	0.91[EUR][1000 genomes]
rs4511999	0.91[EUR][1000 genomes]
rs4546247	0.80[EUR][1000 genomes]
rs4616757	0.91[EUR][1000 genomes]
rs4635819	0.91[EUR][1000 genomes]
rs4699202	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs58168413	0.91[EUR][1000 genomes]
rs6826426	0.91[EUR][1000 genomes]
rs6838274	0.91[EUR][1000 genomes]
rs73836933	0.80[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs73836935	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs73836936	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs7669108	0.91[EUR][1000 genomes]
rs7673502	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7677312	0.91[EUR][1000 genomes]
rs7696538	0.91[EUR][1000 genomes]
rs9990974	0.82[AFR][1000 genomes];0.81[EUR][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	nsv1014993	chr4:106796019-106980727	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106843600-106888400	Weak transcription	Pancreas	Pancrea
2	chr4:106854400-106886800	Weak transcription	GM12878-XiMat	blood
3	chr4:106864800-106886600	Weak transcription	Fetal Kidney	kidney
4	chr4:106866400-106884600	Weak transcription	HSMM	muscle
5	chr4:106867800-106884600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr4:106868200-106886600	Weak transcription	Fetal Lung	lung
7	chr4:106868400-106892000	Weak transcription	Duodenum Mucosa	Duodenum
8	chr4:106872200-106884600	Weak transcription	Aorta	Aorta
9	chr4:106872200-106888400	Weak transcription	Lung	lung
10	chr4:106872800-106884600	Weak transcription	Fetal Intestine Small	intestine
11	chr4:106873000-106888400	Weak transcription	Fetal Muscle Trunk	muscle
12	chr4:106878000-106887000	Weak transcription	Psoas Muscle	Psoas
13	chr4:106878000-106888400	Weak transcription	Ovary	ovary
14	chr4:106878600-106887000	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr4:106879000-106887200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr4:106879000-106888200	Weak transcription	Fetal Muscle Leg	muscle
17	chr4:106879200-106888200	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr4:106879800-106884800	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr4:106879800-106886600	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr4:106880400-106883200	Strong transcription	HSMMtube	muscle
21	chr4:106880600-106884400	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr4:106881000-106884600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr4:106881000-106890400	Weak transcription	Small Intestine	intestine
24	chr4:106881800-106882600	Strong transcription	Fetal Heart	heart
25	chr4:106882000-106883800	Strong transcription	Fetal Intestine Large	intestine
26	chr4:106882000-106884600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr4:106882000-106884600	Weak transcription	Right Atrium	heart
28	chr4:106882400-106884800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr4:106882400-106885000	Enhancers	K562	blood

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