Variant report

Variant	rs1573100
Chromosome Location	chr1:197693782-197693783
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:197691912..197694197-chr1:197700256..197701891,2	K562	blood:
2	chr1:197665354..197667881-chr1:197692912..197694722,2	K562	blood:
3	chr1:197688429..197690737-chr1:197693121..197696010,2	MCF-7	breast:
4	chr1:197692208..197693791-chr1:197705575..197708266,2	K562	blood:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10737693	0.91[ASN][1000 genomes]
rs11583319	0.86[ASN][1000 genomes]
rs11588864	0.98[ASN][1000 genomes]
rs11799915	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12092948	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12117045	0.91[ASN][1000 genomes]
rs12131588	0.97[ASN][1000 genomes]
rs12141028	0.86[ASN][1000 genomes]
rs12354257	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1421399	0.87[ASN][1000 genomes]
rs1539414	0.82[ASN][1000 genomes]
rs16841842	0.93[ASN][1000 genomes]
rs16841904	1.00[ASN][1000 genomes]
rs16841912	0.98[ASN][1000 genomes]
rs17564924	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1775448	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1775452	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1998598	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2477059	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2477073	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2477077	0.97[ASN][1000 genomes]
rs2488389	0.93[ASN][1000 genomes]
rs2488391	0.90[ASN][1000 genomes]
rs2488393	0.91[ASN][1000 genomes]
rs2488397	1.00[ASN][1000 genomes]
rs2488398	1.00[ASN][1000 genomes]
rs2488401	0.96[ASN][1000 genomes]
rs2884629	0.86[ASN][1000 genomes]
rs35939830	0.86[ASN][1000 genomes]
rs4316387	0.85[ASN][1000 genomes]
rs6702421	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873074	chr1:197464448-197698103	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv873075	chr1:197464448-197714851	Enhancers ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv437263	chr1:197599030-197722240	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv427908	chr1:197611569-197767362	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv873077	chr1:197615391-197698103	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
6	nsv548873	chr1:197664905-197694037	Enhancers ZNF genes & repeats Weak transcription Active TSS	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:197688000-197707400	Weak transcription	Left Ventricle	heart
2	chr1:197688600-197694200	Weak transcription	Primary T helper cells PMA-I stimulated	--
3	chr1:197690000-197694200	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr1:197691000-197695200	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr1:197691000-197697200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr1:197691400-197694200	Weak transcription	Osteobl	bone
7	chr1:197692400-197693800	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr1:197692800-197702600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr1:197693000-197696000	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr1:197693200-197695400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr1:197693600-197693800	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr1:197693600-197693800	ZNF genes & repeats	Primary B cells from cord blood	blood
13	chr1:197693600-197696000	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links