Variant report

Variant	rs1746254
Chromosome Location	chr1:168443516-168443517
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs12035479	0.81[EUR][1000 genomes]
rs12035480	0.83[EUR][1000 genomes]
rs1737165	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1737166	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1737167	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1737168	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1737169	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1746250	0.83[EUR][1000 genomes]
rs1746251	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1746252	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1746253	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs858114	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs858115	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs858116	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs858117	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs858118	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][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	nsv1014626	chr1:168441288-168642731	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv535196	chr1:168441288-168642731	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv1011821	chr1:168441488-168642592	Active TSS Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv535197	chr1:168441488-168642592	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:168434400-168443600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr1:168435800-168451400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr1:168439200-168450200	Weak transcription	Stomach Smooth Muscle	stomach
4	chr1:168439400-168446200	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr1:168439400-168451400	Weak transcription	Ovary	ovary
6	chr1:168440400-168451200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr1:168440400-168453000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr1:168440600-168445800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr1:168440600-168445800	Weak transcription	Colon Smooth Muscle	Colon
10	chr1:168440600-168445800	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr1:168440600-168446000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr1:168440600-168446400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr1:168440800-168444200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr1:168442400-168447400	Enhancers	HepG2	liver
15	chr1:168442600-168444200	Enhancers	Fetal Intestine Large	intestine
16	chr1:168443200-168443600	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
17	chr1:168443400-168444000	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr1:168443400-168444000	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr1:168443400-168444200	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr1:168443400-168444200	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr1:168443400-168444200	ZNF genes & repeats	Liver	Liver
22	chr1:168443400-168444200	ZNF genes & repeats	Spleen	Spleen

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