Variant report

Variant	rs1027234
Chromosome Location	chr3:70115600-70115601
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1027233	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1157456	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12495230	0.87[MEX][hapmap];0.82[TSI][hapmap];0.80[AMR][1000 genomes]
rs1388649	0.83[AMR][1000 genomes]
rs1491686	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1491694	0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs1491695	0.83[MEX][hapmap]
rs1491696	0.89[GIH][hapmap]
rs1491697	0.82[AFR][1000 genomes]
rs1491700	0.80[ASN][1000 genomes]
rs1492055	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1492056	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17729465	0.83[ASN][1000 genomes]
rs17729489	0.81[ASN][1000 genomes]
rs17785756	0.81[JPT][hapmap]
rs2131122	0.84[AMR][1000 genomes]
rs2874269	0.84[JPT][hapmap]
rs4855334	0.81[ASN][1000 genomes]
rs6549261	0.86[TSI][hapmap]
rs6549264	0.81[AMR][1000 genomes]
rs6549265	0.81[AMR][1000 genomes]
rs6549266	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6549267	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs6763730	0.81[ASN][1000 genomes]
rs6772684	0.81[AMR][1000 genomes]
rs6799525	0.81[JPT][hapmap]
rs7619924	0.81[JPT][hapmap];0.85[YRI][hapmap]
rs7634340	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7634564	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7645353	0.83[ASN][1000 genomes]
rs7647661	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7651972	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9310179	0.86[TSI][hapmap]
rs9310181	0.80[ASN][1000 genomes]
rs9809122	0.82[AMR][1000 genomes]
rs9815027	0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs9815287	0.80[AMR][1000 genomes]
rs9818964	0.83[ASN][1000 genomes]
rs9837453	0.81[ASN][1000 genomes]
rs9840951	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs9851891	0.80[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533396	chr3:69964029-70538306	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1027234	RP11-460N16.1	cis	Artery Aorta	GTEx

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:70107400-70116800	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr3:70107400-70120400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:70107600-70120200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr3:70112600-70120600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr3:70113000-70117600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr3:70113800-70119800	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr3:70113800-70120200	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr3:70113800-70120400	Weak transcription	Brain Anterior Caudate	brain
9	chr3:70113800-70120400	Weak transcription	Brain Substantia Nigra	brain
10	chr3:70113800-70123800	Weak transcription	Gastric	stomach
11	chr3:70114000-70117000	Weak transcription	Psoas Muscle	Psoas
12	chr3:70114800-70116800	Enhancers	Fetal Heart	heart
13	chr3:70115000-70120200	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr3:70115000-70120200	Weak transcription	Brain Hippocampus Middle	brain
15	chr3:70115400-70115800	Weak transcription	Aorta	Aorta

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