Variant report

Variant	rs7541727
Chromosome Location	chr1:159932319-159932320
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:159926244..159929298-chr1:159931208..159934136,4	K562	blood:
2	chr1:159914809..159917137-chr1:159930388..159932667,2	K562	blood:
3	chr1:159913973..159917644-chr1:159927852..159934070,11	MCF-7	breast:
4	chr1:159893768..159896638-chr1:159931610..159934083,3	K562	blood:

Variant related genes	Relation type
ENSG00000158710	Chromatin interaction
ENSG00000085552	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs4378200	1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];0.84[YRI][hapmap];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4656248	1.00[JPT][hapmap]
rs4656250	1.00[JPT][hapmap]
rs4656859	1.00[JPT][hapmap]
rs4656860	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4656861	1.00[JPT][hapmap]
rs4656862	0.81[GIH][hapmap];1.00[JPT][hapmap];0.81[MKK][hapmap];0.81[TSI][hapmap]
rs60647227	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6427500	0.82[YRI][hapmap];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv872489	chr1:159844819-159940000	Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv548055	chr1:159918418-159940000	Enhancers Flanking Active TSS Active TSS Genic enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv520773	chr1:159922959-159935569	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:159928000-159941800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr1:159929400-159934000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr1:159930600-159932400	Active TSS	NHEK	skin
4	chr1:159930800-159933000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr1:159931000-159932400	Active TSS	Colonic Mucosa	Colon
6	chr1:159931000-159932400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
7	chr1:159931000-159932600	Active TSS	Duodenum Mucosa	Duodenum
8	chr1:159931000-159932600	Active TSS	Fetal Stomach	stomach
9	chr1:159931000-159934400	Active TSS	Stomach Mucosa	stomach
10	chr1:159931400-159932600	Active TSS	Gastric	stomach
11	chr1:159931600-159932600	Enhancers	Fetal Intestine Large	intestine
12	chr1:159931600-159933000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr1:159931800-159933000	Enhancers	Sigmoid Colon	Sigmoid Colon
14	chr1:159932000-159949800	Weak transcription	Esophagus	oesophagus
15	chr1:159932200-159932600	Flanking Active TSS	Fetal Intestine Small	intestine
16	chr1:159932200-159933000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr1:159932200-159933000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr1:159932200-159933400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr1:159932200-159933400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr1:159932200-159933400	Active TSS	Rectal Mucosa Donor 29	rectum

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