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mmu_circAtp13a3_748
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp13a3_748
mm39_Chr. Position ID:
chr16|30169780|30176092|-
Gene name:
Atp13a3
Transcript:
ENSMUST00000061350.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
13,12,11,10,9,8
Exon/intron offsets:
0,266,1305,3269,4790,6242
Genomic length:
6312
Exon/intron sizes in nt:
158,180,132,73,135,70
Flanking exon/introns:
chr16:30168691-30169780|chr16:30176092-30178486
Splice length:
748
Other database IDs:
circAtlas: mmu-Atp13a3_0062
Human Ortholog IDs:
Mature spliced Sequence:
AAAGTTGATTTATGGAGTAAATGAAATTGCTGTGAAAGTGCCTTCTGTTTTTAAGCTTCTAATTAAAGAGGTTCTCAACCCATTTTACATTTTCCAGCTCTTCAGTGTTATCCTGTGGAGCGTTGATGAGTACTATTACTATGCTCTAGCCATTGTGATCATGTCCGTAGTATCCATTATAAGTTCACTATATTCCATTAGAAAGCAATATGTTATGTTACATGACATGGTGGCAACTCACAGTACCGTGAGAGTTTCAGTCTGTAGAGAAAATGAAGAAATAGAAGAGATCTTTTCTACAGACCTTGTGCCGGGAGACGTCATGATCATTCCATTAAATGGGACAGTCATGCCTTGTGATGCAGTACTTATTAATGGTACTTGCATTGTAAATGAAAGCATGTTAACAGGAGAAAGTGTTCCAGTGACAAAGACTAATTTGCCAAATCCTTCAGTGGATGTGAAAGGAATGGGGGAGGAGCAGTACAGCCCAGAGACACACAAGCGGCACACTTTGTTTTGTGGGACGACTGTTATTCAGACCCGTTTCTACACTGGAGAACTTGTGAAAGCCATAGTAGTTAGAACAGGATTTAGTACTTCCAAAGGACAGCTTGTTCGTTCTATACTGTATCCCAAGCCAACTGACTTTAAACTCTATAGAGATGCCTACTTGTTTCTGCTGTGTCTTGTGGTGGTGGCTGGAATTGGATTTATCTACACAATCATCAATAGCATCCTAAATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTGGTGGTGGCTGGAATT
60.11
AGCTGGAAAATGTAAAATGGGTTGA
59.69
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGCTGTGTCTTGTGGTGG
60.18
AGCTGGAAAATGTAAAATGGGTTGA
59.69
169
PCR template sequence:
CTTTAAACTCTATAGAGATGCCTACTTGTTTCTGCTGTGTCTTGTGGTGGTGGCTGGAATTGGATTTATCTACACAATCATCAATAGCATCCTAAATGAGAAAGTTGATTTATGGAGTAAATGAAATTGCTGTGAAAGTGCCTTCTGTTTTTAAGCTTCTAATTAAAGAGGTTCTCAACCCATTTTACATTTTCCAGCTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-137-3p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-199a-5p(1), mmu-miR-135a-5p(1), mmu-miR-217-5p(1), mmu-miR-203-3p(1), mmu-miR-326-3p(1), mmu-miR-214-3p(1), mmu-miR-669d-5p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATCCTAAATGAGAAAGTTGATTTAT
siRNA sets
AATCAACTTTCTCATTTAG, AACTTTCTCATTTAGGATG, ATCAACTTTCTCATTTAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP13A3_748_ORF_1
0.9874
0.038337622
0.895554827
753
ORF sequence:
ATGAGAAAGTTGATTTATGGAGTAAATGAAATTGCTGTGAAAGTGCCTTCTGTTTTTAAGCTTCTAATTAAAGAGGTTCTCAACCCATTTTACATTTTCCAGCTCTTCAGTGTTATCCTGTGGAGCGTTGATGAGTACTATTACTATGCTCTAGCCATTGTGATCATGTCCGTAGTATCCATTATAAGTTCACTATATTCCATTAGAAAGCAATATGTTATGTTACATGACATGGTGGCAACTCACAGTACCGTGAGAGTTTCAGTCTGTAGAGAAAATGAAGAAATAGAAGAGATCTTTTCTACAGACCTTGTGCCGGGAGACGTCATGATCATTCCATTAAATGGGACAGTCATGCCTTGTGATGCAGTACTTATTAATGGTACTTGCATTGTAAATGAAAGCATGTTAACAGGAGAAAGTGTTCCAGTGACAAAGACTAATTTGCCAAATCCTTCAGTGGATGTGAAAGGAATGGGGGAGGAGCAGTACAGCCCAGAGACACACAAGCGGCACACTTTGTTTTGTGGGACGACTGTTATTCAGACCCGTTTCTACACTGGAGAACTTGTGAAAGCCATAGTAGTTAGAACAGGATTTAGTACTTCCAAAGGACAGCTTGTTCGTTCTATACTGTATCCCAAGCCAACTGACTTTAAACTCTATAGAGATGCCTACTTGTTTCTGCTGTGTCTTGTGGTGGTGGCTGGAATTGGATTTATCTACACAATCATCAATAGCATCCTAAATGAG
Peptide sequence:
MRKLIYGVNEIAVKVPSVFKLLIKEVLNPFYIFQLFSVILWSVDEYYYYALAIVIMSVVSIISSLYSIRKQYVMLHDMVATHSTVRVSVCRENEEIEEIFSTDLVPGDVMIIPLNGTVMPCDAVLINGTCIVNESMLTGESVPVTKTNLPNPSVDVKGMGEEQYSPETHKRHTLFCGTTVIQTRFYTGELVKAIVVRTGFSTSKGQLVRSILYPKPTDFKLYRDAYLFLLCLVVVAGIGFIYTIINSILNE
IRESfinder result
IRESfinder score
0.775035295
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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