Variant report

Variant	rs1490270
Chromosome Location	chr3:67340025-67340026
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs1065399	0.81[CEU][hapmap]
rs12330438	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13325134	0.96[AFR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34568841	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs68019502	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9848814	0.83[AFR][1000 genomes];0.89[ASN][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	nsv1007093	chr3:67113534-67602973	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1490270	SUCLG2	cis	multi-tissue	Pritchard

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:67335200-67341000	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr3:67338800-67340600	Enhancers	Monocytes-CD14+_RO01746	blood
3	chr3:67338800-67344000	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr3:67339200-67340200	Enhancers	Fetal Brain Male	brain
5	chr3:67339200-67340200	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr3:67339600-67340200	Weak transcription	Aorta	Aorta
7	chr3:67339800-67340200	Enhancers	Brain Hippocampus Middle	brain
8	chr3:67339800-67340600	Enhancers	Brain Angular Gyrus	brain
9	chr3:67339800-67340600	Enhancers	Skeletal Muscle Male	skeletal muscle
10	chr3:67339800-67342600	Enhancers	HSMMtube	muscle
11	chr3:67340000-67340400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr3:67340000-67340800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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