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mmu_circAuh_393
Basic information of circular RNA
PanCircBase ID:
mmu_circAuh_393
mm39_Chr. Position ID:
chr13|53041276|53073302|-
Gene name:
Auh
Transcript:
ENSMUST00000021913.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,1862,11409,31760,31958
Genomic length:
32026
Exon/intron sizes in nt:
57,93,87,88,68
Flanking exon/introns:
chr13:52995100-53041276|chr13:53073302-53083490
Splice length:
393
Other database IDs:
circBase: mmu_circ_0004646, CIRCpedia: MMU_CIRCpedia_22464, circAtlas: mmu-Auh_0001
circBase: hsa_circ_0003518, circAtlas: hsa-AUH_0001, CIRCpedia: HSA_CIRCpedia_111536
Human Ortholog IDs:
Mature spliced Sequence:
GCATTGTGGTGCTCGGGATTAACAGAGCTTATGGGAAAAATGCACTCAGTAAAAATCTCCTCAAGATGTTATCAAAAGCGGTGGATGCATTAAAGTCAGATAAGAAAGTTCGGACCATTATCATCAGAAGTGAAGTCCCTGGGATATTCTGTGCTGGTGCTGACCTTAAGGAACGAGCCAAGATGCATTCCAGTGAAGTTGGTCCCTTTGTCTCCAAGATCCGATCGGTGATCAATGACATTGCAAACCTCCCGGTGCCCACCATCGCAGCCATAGACGGCCTTGCCCTCGGAGGGGGTCTGGAGCTGGCTCTAGCGTGTGACATTCGAGTAGCAGCTTCCTCTGCAAAAATGGGCCTGGTTGAAACAAAGTTGGCAATTATTCCTGGCGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAAAAATGGGCCTGGTTG
59.89
AATGCATCCACCGCTTTTGA
58.74
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTCTGCAAAAATGGGCCT
59.89
AATGCATCCACCGCTTTTGA
58.74
146
PCR template sequence:
GGGGGTCTGGAGCTGGCTCTAGCGTGTGACATTCGAGTAGCAGCTTCCTCTGCAAAAATGGGCCTGGTTGAAACAAAGTTGGCAATTATTCCTGGCGGAGGCATTGTGGTGCTCGGGATTAACAGAGCTTATGGGAAAAATGCACTCAGTAAAAATCTCCTCAAGATGTTATCAAAAGCGGTGGATGCATTAAAGTCAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(1), mmu-miR-129-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTCCTGGCGGAGGCATTGTGGTGCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAUH_393_ORF_1
1.1557
0.273463159
0.96089209
720
ORF sequence:
ATGTTATCAAAAGCGGTGGATGCATTAAAGTCAGATAAGAAAGTTCGGACCATTATCATCAGAAGTGAAGTCCCTGGGATATTCTGTGCTGGTGCTGACCTTAAGGAACGAGCCAAGATGCATTCCAGTGAAGTTGGTCCCTTTGTCTCCAAGATCCGATCGGTGATCAATGACATTGCAAACCTCCCGGTGCCCACCATCGCAGCCATAGACGGCCTTGCCCTCGGAGGGGGTCTGGAGCTGGCTCTAGCGTGTGACATTCGAGTAGCAGCTTCCTCTGCAAAAATGGGCCTGGTTGAAACAAAGTTGGCAATTATTCCTGGCGGAGGCATTGTGGTGCTCGGGATTAACAGAGCTTATGGGAAAAATGCACTCAGTAAAAATCTCCTCAAGATGTTATCAAAAGCGGTGGATGCATTAAAGTCAGATAAGAAAGTTCGGACCATTATCATCAGAAGTGAAGTCCCTGGGATATTCTGTGCTGGTGCTGACCTTAAGGAACGAGCCAAGATGCATTCCAGTGAAGTTGGTCCCTTTGTCTCCAAGATCCGATCGGTGATCAATGACATTGCAAACCTCCCGGTGCCCACCATCGCAGCCATAGACGGCCTTGCCCTCGGAGGGGGTCTGGAGCTGGCTCTAGCGTGTGACATTCGAGTAGCAGCTTCCTCTGCAAAAATGGGCCTGGTTGAAACAAAGTTGGCAATTATTCCTGGCGGA
Peptide sequence:
MLSKAVDALKSDKKVRTIIIRSEVPGIFCAGADLKERAKMHSSEVGPFVSKIRSVINDIANLPVPTIAAIDGLALGGGLELALACDIRVAASSAKMGLVETKLAIIPGGGIVVLGINRAYGKNALSKNLLKMLSKAVDALKSDKKVRTIIIRSEVPGIFCAGADLKERAKMHSSEVGPFVSKIRSVINDIANLPVPTIAAIDGLALGGGLELALACDIRVAASSAKMGLVETKLAIIPGG
IRESfinder result
IRESfinder score
0.379425811
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
RPF, cORF
mmu_circAuh_001
Evidence
Peptide sequence:
MLSKAVDALKSDKKVRTIIIRSEVPGIFCAGADLKERAKMHSSEVGPFVSKIRSVINDIANLPVPTIAAIDGLALGGGLELALACDIRVAASSAKMGLVETKLAIIPGGGIVVLGINRAYGKNALSKNLLKMLSKAVDALKSDKKVRTIIIRSEVPGIFCAGADLKERAKMHSSEVGPFVSKIRSVINDIANLPVPTIAAIDGLALGGGLELALACDIRVAASSAKMGLVETKLAIIPGGGIVVLGINRAYGKNALSKNLLK
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