Variant report

Variant	rs1454897
Chromosome Location	chr4:79165419-79165420
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10010118	0.84[ASN][1000 genomes]
rs10011303	0.82[EUR][1000 genomes]
rs10015504	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10020592	0.82[EUR][1000 genomes]
rs10023308	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10023311	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10023496	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10027981	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10028695	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10031070	0.81[EUR][1000 genomes]
rs10518197	0.83[EUR][1000 genomes]
rs11722519	0.80[EUR][1000 genomes]
rs11725497	0.85[EUR][1000 genomes]
rs11736213	0.85[ASN][1000 genomes]
rs11941469	0.84[EUR][1000 genomes]
rs12502886	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12510741	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12511033	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs13115668	0.85[EUR][1000 genomes]
rs1378239	0.82[ASN][1000 genomes]
rs1454896	0.83[EUR][1000 genomes]
rs1470989	0.83[EUR][1000 genomes]
rs1869646	0.82[EUR][1000 genomes]
rs1952399	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1958276	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2008786	0.83[ASN][1000 genomes]
rs2124146	0.83[EUR][1000 genomes]
rs2168203	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28493765	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2867011	0.84[EUR][1000 genomes]
rs2867012	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28679752	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs34398622	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs345507	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs35683023	0.85[ASN][1000 genomes]
rs385693	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4241623	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4859524	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4859918	0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4859920	0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4859923	0.82[ASN][1000 genomes]
rs4859924	0.82[ASN][1000 genomes]
rs6533565	0.84[ASN][1000 genomes]
rs6533571	0.82[ASN][1000 genomes]
rs6833721	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6854043	0.84[ASN][1000 genomes]
rs7694740	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7696792	0.82[ASN][1000 genomes]
rs7697230	0.91[EUR][1000 genomes]
rs9762380	0.84[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	nsv534024	chr4:78785189-79437403	ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1009633	chr4:78887573-79652236	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	nsv525530	chr4:79024524-79266563	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv1010782	chr4:79057839-79387207	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
5	nsv999844	chr4:79092549-79165869	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv829978	chr4:79144453-79291868	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:79144200-79176000	Weak transcription	Psoas Muscle	Psoas
2	chr4:79144600-79179000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr4:79154400-79173600	Weak transcription	HepG2	liver
4	chr4:79158800-79165600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr4:79158800-79165800	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr4:79160400-79168800	Weak transcription	Fetal Lung	lung
7	chr4:79162600-79165600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr4:79162800-79167400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr4:79163600-79166000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr4:79163600-79173600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr4:79165000-79166000	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr4:79165200-79166600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr4:79165400-79165600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr4:79165400-79166200	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr4:79165400-79166400	Enhancers	HUES64 Cell Line	embryonic stem cell
16	chr4:79165400-79166400	Enhancers	Fetal Intestine Small	intestine
17	chr4:79165400-79166600	Enhancers	Fetal Intestine Large	intestine

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