Variant report

Variant	rs60831969
Chromosome Location	chr4:54365499-54365500
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr4:54365476-54365649	MCF10A-Er-Src	breast:	n/a	n/a
2	FOS	chr4:54365495-54365742	MCF10A-Er-Src	breast:	n/a	n/a
3	FOS	chr4:54365488-54365729	MCF10A-Er-Src	breast:	n/a	n/a
4	FOS	chr4:54365438-54365752	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
LNX1-AS1	TF binding region

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10434434	0.87[EUR][1000 genomes]
rs12233879	0.87[EUR][1000 genomes]
rs12504531	0.87[EUR][1000 genomes]
rs12505040	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12506661	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12507598	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1435211	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17082654	0.87[EUR][1000 genomes]
rs2164265	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2271560	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2292578	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34354009	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs56007140	0.87[EUR][1000 genomes]
rs56708336	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56921221	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58860516	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59651495	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61015316	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61435460	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62323220	0.87[EUR][1000 genomes]
rs62323564	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62323567	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62323568	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62323569	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62323573	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62323589	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62323593	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62323595	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62323596	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62323598	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62323599	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62323601	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62323602	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62325162	0.87[EUR][1000 genomes]
rs62325166	0.87[EUR][1000 genomes]
rs62325214	0.87[EUR][1000 genomes]
rs62325216	0.87[EUR][1000 genomes]
rs62325219	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62325220	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62325221	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62325225	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62325227	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62325228	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6820658	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6850443	0.82[EUR][1000 genomes]
rs6855607	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6856301	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:54329600-54373600	Weak transcription	Brain Germinal Matrix	brain
2	chr4:54329800-54374000	Weak transcription	Left Ventricle	heart
3	chr4:54333000-54374800	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr4:54343000-54385600	Weak transcription	Fetal Brain Female	brain
5	chr4:54343200-54376800	Weak transcription	Brain Anterior Caudate	brain
6	chr4:54346400-54374000	Weak transcription	Right Ventricle	heart
7	chr4:54347600-54401800	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr4:54355200-54378600	Weak transcription	Fetal Brain Male	brain
9	chr4:54356600-54373400	Weak transcription	Right Atrium	heart
10	chr4:54362000-54366600	Enhancers	Ovary	ovary
11	chr4:54362400-54374200	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr4:54362600-54368000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
13	chr4:54362800-54366600	Enhancers	Fetal Muscle Leg	muscle
14	chr4:54362800-54373000	Weak transcription	Liver	Liver
15	chr4:54362800-54376000	Weak transcription	Brain Angular Gyrus	brain
16	chr4:54363200-54366200	Weak transcription	Pancreas	Pancrea
17	chr4:54363200-54373400	Weak transcription	Gastric	stomach
18	chr4:54363200-54384200	Weak transcription	Esophagus	oesophagus
19	chr4:54363400-54366800	Enhancers	HSMMtube	muscle
20	chr4:54363800-54366200	Weak transcription	Fetal Kidney	kidney
21	chr4:54363800-54371400	Weak transcription	Duodenum Mucosa	Duodenum
22	chr4:54363800-54371800	Weak transcription	Fetal Intestine Large	intestine
23	chr4:54363800-54384000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr4:54364000-54366200	Weak transcription	Fetal Intestine Small	intestine
25	chr4:54364200-54365800	Weak transcription	HSMM	muscle
26	chr4:54364200-54366000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr4:54364200-54367600	Weak transcription	Placenta	Placenta
28	chr4:54364200-54373200	Weak transcription	Adipose Nuclei	Adipose
29	chr4:54364200-54373200	Weak transcription	NHDF-Ad	bronchial
30	chr4:54364400-54366000	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr4:54364400-54368400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr4:54364400-54371800	Weak transcription	Rectal Mucosa Donor 31	rectum
33	chr4:54364600-54365800	Enhancers	Breast Myoepithelial Primary Cells	Breast
34	chr4:54364800-54365600	Enhancers	Aorta	Aorta
35	chr4:54365000-54365600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr4:54365200-54370600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr4:54365400-54366600	Enhancers	Fetal Muscle Trunk	muscle
38	chr4:54365400-54374200	Weak transcription	Fetal Stomach	stomach

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