Variant report

Variant	rs3117638
Chromosome Location	chr9:27178697-27178698
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs13295206	1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2224530	0.81[CEU][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2273722	0.89[JPT][hapmap]
rs2273723	0.81[ASN][1000 genomes]
rs2756900	0.89[JPT][hapmap]
rs35275206	0.86[ASN][1000 genomes]
rs35417610	0.81[ASN][1000 genomes]
rs489451	0.89[JPT][hapmap]
rs489552	0.84[AMR][1000 genomes]
rs536482	0.83[AMR][1000 genomes]
rs541065	0.89[JPT][hapmap]
rs542913	0.89[JPT][hapmap];0.81[AMR][1000 genomes]
rs566490	0.89[JPT][hapmap];0.81[AMR][1000 genomes]
rs574118	0.89[JPT][hapmap];0.81[AMR][1000 genomes]
rs578327	0.87[AMR][1000 genomes]
rs590894	0.90[CEU][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs593621	0.81[AMR][1000 genomes]
rs594949	0.89[JPT][hapmap];0.81[AMR][1000 genomes]
rs595303	0.89[JPT][hapmap];0.81[AMR][1000 genomes]
rs607650	0.89[JPT][hapmap];0.81[AMR][1000 genomes]
rs608416	0.89[JPT][hapmap];0.81[AMR][1000 genomes]
rs609766	0.88[JPT][hapmap]
rs633903	0.84[AMR][1000 genomes]
rs685421	0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892862	chr9:26956663-27190655	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv1016733	chr9:27073650-27264576	Enhancers Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1022313	chr9:27083369-27250505	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1017802	chr9:27088160-27262682	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1019104	chr9:27088160-27358206	Enhancers Weak transcription Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
6	nsv6512	chr9:27155677-27200455	Weak transcription Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv892864	chr9:27176554-27296705	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:27151000-27229200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr9:27152400-27181600	Weak transcription	Adipose Nuclei	Adipose
3	chr9:27158200-27183600	Weak transcription	Lung	lung
4	chr9:27165400-27198200	Weak transcription	Ovary	ovary
5	chr9:27165400-27219200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr9:27165800-27181600	Weak transcription	Fetal Lung	lung
7	chr9:27166000-27183600	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr9:27166200-27192200	Weak transcription	Fetal Stomach	stomach
9	chr9:27166200-27205800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr9:27166200-27229000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr9:27173200-27179200	Weak transcription	NH-A	brain
12	chr9:27174800-27183200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr9:27174800-27183800	Weak transcription	Right Ventricle	heart
14	chr9:27176400-27178800	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr9:27177400-27179200	Weak transcription	HUVEC	blood vessel
16	chr9:27177600-27179600	Weak transcription	Left Ventricle	heart
17	chr9:27178000-27179600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr9:27178400-27179400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr9:27178400-27180800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr9:27178400-27183600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr9:27178400-27197200	Weak transcription	Fetal Muscle Trunk	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links