Variant report

Variant	rs12522552
Chromosome Location	chr5:107195846-107195847
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:107194483..107196871-chr5:107218196..107219851,2	K562	blood:

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11253	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12188414	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12189428	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12515389	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12518124	0.84[ASW][hapmap]
rs12519254	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12519388	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12520230	0.83[LWK][hapmap];0.90[MEX][hapmap];0.95[MKK][hapmap]
rs12522548	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1368441	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17160630	0.83[EUR][1000 genomes]
rs17160662	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17160676	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17160677	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17160706	0.86[CEU][hapmap];0.85[CHB][hapmap];0.90[MEX][hapmap]
rs17369104	0.86[CEU][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap]
rs34990078	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35343876	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57060622	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61749621	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7716800	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7718258	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][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	nsv830440	chr5:107074116-107278905	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12522552	FBXL17	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107189000-107196800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr5:107189000-107204000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr5:107189000-107212200	Weak transcription	Fetal Brain Male	brain
4	chr5:107192800-107197200	Weak transcription	Primary T cells from cord blood	blood
5	chr5:107193800-107196800	Weak transcription	Esophagus	oesophagus
6	chr5:107194000-107219000	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr5:107194400-107196800	Weak transcription	Adipose Nuclei	Adipose
8	chr5:107195200-107196800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr5:107195200-107196800	Weak transcription	Liver	Liver
10	chr5:107195200-107196800	Weak transcription	Duodenum Mucosa	Duodenum
11	chr5:107195200-107196800	Weak transcription	Ovary	ovary
12	chr5:107195200-107197400	Weak transcription	Right Ventricle	heart
13	chr5:107195200-107214800	Weak transcription	Primary B cells from peripheral blood	blood
14	chr5:107195400-107197400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr5:107195400-107197400	Weak transcription	Gastric	stomach
16	chr5:107195400-107204800	Weak transcription	Brain Anterior Caudate	brain
17	chr5:107195400-107205000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr5:107195400-107207600	Weak transcription	Spleen	Spleen
19	chr5:107195400-107208600	Weak transcription	Brain Hippocampus Middle	brain
20	chr5:107195400-107211600	Weak transcription	Aorta	Aorta
21	chr5:107195400-107214200	Weak transcription	Primary B cells from cord blood	blood
22	chr5:107195400-107215000	Weak transcription	Primary T cells fromperipheralblood	blood
23	chr5:107195400-107215000	Weak transcription	Primary T helper cells fromperipheralblood	blood
24	chr5:107195400-107217800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr5:107195400-107220000	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr5:107195400-107223200	Weak transcription	Left Ventricle	heart
27	chr5:107195600-107196200	Enhancers	HUES48 Cell Line	embryonic stem cell
28	chr5:107195600-107196400	Enhancers	Cortex derived primary cultured neurospheres	brain
29	chr5:107195600-107197400	Weak transcription	Pancreas	Pancrea
30	chr5:107195600-107204600	Weak transcription	Fetal Stomach	stomach
31	chr5:107195800-107196000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr5:107195800-107196200	Enhancers	Dnd41	blood
33	chr5:107195800-107196400	Enhancers	Pancreatic Islets	Pancreatic Islet
34	chr5:107195800-107214400	Weak transcription	Fetal Intestine Small	intestine
35	chr5:107195800-107218200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood

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