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mmu_circAtp13a3_2216
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp13a3_2216
mm39_Chr. Position ID:
chr16|30158430|30180308|-
Gene name:
Atp13a3
Transcript:
ENSMUST00000061350.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
19
Exon/intron indexes:
24,23,22,21,20,19,18,17,16,15,14,13,12,11,10,9,8,7,6
Exon/intron offsets:
0,163,610,1540,3821,4030,4277,4909,8013,8437,10072,11350,11616,12655,14619,16140,17592,20056,21807
Genomic length:
21878
Exon/intron sizes in nt:
80,123,176,125,121,154,18,117,151,62,189,158,180,132,73,135,70,81,71
Flanking exon/introns:
chr16:30157487-30158430|chr16:30180308-30180631
Splice length:
2216
Other database IDs:
circAtlas: mmu-Atp13a3_0036
Human Ortholog IDs:
Mature spliced Sequence:
ATGCGTTATTTTACCCACCATAGCATAAGATATTTCTGGAATGATGCCATTCACAATTTTGATTTCTTAAAGGGACTGGATGAAGGTGTATCTTGTGCATCACTTTATGAAAAGCATAGTGCAGGACTGACACAGGGGATGCATGCCTACAGAAAGTTGATTTATGGAGTAAATGAAATTGCTGTGAAAGTGCCTTCTGTTTTTAAGCTTCTAATTAAAGAGGTTCTCAACCCATTTTACATTTTCCAGCTCTTCAGTGTTATCCTGTGGAGCGTTGATGAGTACTATTACTATGCTCTAGCCATTGTGATCATGTCCGTAGTATCCATTATAAGTTCACTATATTCCATTAGAAAGCAATATGTTATGTTACATGACATGGTGGCAACTCACAGTACCGTGAGAGTTTCAGTCTGTAGAGAAAATGAAGAAATAGAAGAGATCTTTTCTACAGACCTTGTGCCGGGAGACGTCATGATCATTCCATTAAATGGGACAGTCATGCCTTGTGATGCAGTACTTATTAATGGTACTTGCATTGTAAATGAAAGCATGTTAACAGGAGAAAGTGTTCCAGTGACAAAGACTAATTTGCCAAATCCTTCAGTGGATGTGAAAGGAATGGGGGAGGAGCAGTACAGCCCAGAGACACACAAGCGGCACACTTTGTTTTGTGGGACGACTGTTATTCAGACCCGTTTCTACACTGGAGAACTTGTGAAAGCCATAGTAGTTAGAACAGGATTTAGTACTTCCAAAGGACAGCTTGTTCGTTCTATACTGTATCCCAAGCCAACTGACTTTAAACTCTATAGAGATGCCTACTTGTTTCTGCTGTGTCTTGTGGTGGTGGCTGGAATTGGATTTATCTACACAATCATCAATAGCATCCTAAATGAGAAAGAAGTTCAAGAAATAATTATTAAGTCTCTTGATATCATTACAATTACTGTGCCACCTGCTCTTCCTGCTGCAATGACTGCTGGGATTGTGTATGCTCAGAGAAGACTGAAAAAAGTTGGGATTTTCTGTATTAGTCCCCAGAGGATAAACATCTGTGGACAGCTGAACCTTGTTTGCTTTGACAAGACTGGAACTCTTACCGAAGATGGTTTAGATCTGTGGGGAATTCAGCGAGTGGAAAATACCCGATTTCTTTTACCAGAAGACAATGTTTGCAGTGAGATGTTGGTAAAATCTCAATTTGTTGCTTGTATGGCTACTTGTCATTCACTTACAAAAATCGAAGGTGTACTTTCTGGTGACCCACTTGATTTGAAAATGTTTGAAGCCATTGGATGGATTCTGGAAGAAGCAACTGAAGAAGAAACAGCACTTCATAACCGGATCATGCCTACTGTGGTTCGTCCTTCCAAACAACTGCTTCCTGAACCTACAACTGCAGGAAACCAAGAAATGGAGCTGTTTGAACTTCCAGCTATTTATGAGATAGGAATTGTTCGCCAGTTTCCATTTTCTTCTGCCTTGCAACGGATGAGTGTGGTTGCAAGGACACTAGGTGAGAAGAGGATGGATGCCTACATGAAGGGGGCCCCTGAGGTTGTCGCCAGTCTCTGCAAACCGGAAACAGTTCCAGTTGATTTTGAGAAAGTGTTAGAAGATTATACCAAACAAGGTTTCCGTGTAATTGCTCTTGCACACAGAAAATTGGAGTCAAAGCTGACCTGGCATAAAGTACAGCATATTAGCAGAGATGCCATTGAAAACAACATGGATTTTATGGGATTGATTATAATGCAGAACAAATTGAAGCAGGAAACCCCTGCAGTACTTGAAGATTTGCATAAAGCCAACATTCGAACTGTCATGGTCACAGGAGACAACATGTTGACGGCTGTCTCTGTGGCCAGAGACTGTGGGATGATTCTACCTCAGGATAAAGTTATTATTGCTGAAGCATTACCTCCAAAGGATGGAAAAGTTGCCAAGATCAATTGGCATTATACAGACTCCCTGTCACAGTGTAGTGAATCATCAGCCATTGACTCAGAGGCTATTCCAATCAAACTTGCCCATGATAGTTTAGAGGATCTTGAGGTGACTCGCTATCATTTTGCGATGAATGGAAAGTCATTTTCGGTGATACTGGAACATTTTCAAGATCTTGTTCCTAAGTTGATGTTGCATGGTACTGTGTTTGCTCGAATGGCACCGGATCAGAAGACACAATTGGTGGAGGCATTGCAGAACGTAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGTTTGCTCGAATGGCAC
59.69
ACACCTTCATCCAGTCCCTT
58.25
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGTTTGCTCGAATGGCACC
60.39
ACACCTTCATCCAGTCCCTT
58.25
151
PCR template sequence:
TTCAAGATCTTGTTCCTAAGTTGATGTTGCATGGTACTGTGTTTGCTCGAATGGCACCGGATCAGAAGACACAATTGGTGGAGGCATTGCAGAACGTAGAATGCGTTATTTTACCCACCATAGCATAAGATATTTCTGGAATGATGCCATTCACAATTTTGATTTCTTAAAGGGACTGGATGAAGGTGTATCTTGTGCAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
29
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(2), mmu-miR-135a-5p(2), mmu-miR-214-3p(2), mmu-miR-137-3p(1), mmu-let-7a-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-199a-5p(1), mmu-let-7e-5p(1), mmu-miR-101a-3p(1), mmu-miR-26a-5p(1), mmu-miR-322-5p(1), mmu-miR-335-5p(1), mmu-miR-217-5p(1), mmu-miR-203-3p(1), mmu-miR-324-5p(1), mmu-miR-326-3p(1), mmu-miR-381-3p(1), mmu-let-7d-5p(1), mmu-miR-136-5p(1), mmu-miR-26b-5p(1), mmu-miR-212-3p(1), mmu-miR-680(1), mmu-miR-29b-2-5p(1), mmu-miR-669d-5p(1), mmu-miR-452-3p(1), mmu-miR-188-3p(1), mmu-miR-544-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCAGAACGTAGAATGCGTTATTTTA
siRNA sets
AAAATAACGCATTCTACGT, TAAAATAACGCATTCTACG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP13A3_2216_ORF_1
0.9602
0.048911798
0.999997327
2244
ORF sequence:
ATGCGTTATTTTACCCACCATAGCATAAGATATTTCTGGAATGATGCCATTCACAATTTTGATTTCTTAAAGGGACTGGATGAAGGTGTATCTTGTGCATCACTTTATGAAAAGCATAGTGCAGGACTGACACAGGGGATGCATGCCTACAGAAAGTTGATTTATGGAGTAAATGAAATTGCTGTGAAAGTGCCTTCTGTTTTTAAGCTTCTAATTAAAGAGGTTCTCAACCCATTTTACATTTTCCAGCTCTTCAGTGTTATCCTGTGGAGCGTTGATGAGTACTATTACTATGCTCTAGCCATTGTGATCATGTCCGTAGTATCCATTATAAGTTCACTATATTCCATTAGAAAGCAATATGTTATGTTACATGACATGGTGGCAACTCACAGTACCGTGAGAGTTTCAGTCTGTAGAGAAAATGAAGAAATAGAAGAGATCTTTTCTACAGACCTTGTGCCGGGAGACGTCATGATCATTCCATTAAATGGGACAGTCATGCCTTGTGATGCAGTACTTATTAATGGTACTTGCATTGTAAATGAAAGCATGTTAACAGGAGAAAGTGTTCCAGTGACAAAGACTAATTTGCCAAATCCTTCAGTGGATGTGAAAGGAATGGGGGAGGAGCAGTACAGCCCAGAGACACACAAGCGGCACACTTTGTTTTGTGGGACGACTGTTATTCAGACCCGTTTCTACACTGGAGAACTTGTGAAAGCCATAGTAGTTAGAACAGGATTTAGTACTTCCAAAGGACAGCTTGTTCGTTCTATACTGTATCCCAAGCCAACTGACTTTAAACTCTATAGAGATGCCTACTTGTTTCTGCTGTGTCTTGTGGTGGTGGCTGGAATTGGATTTATCTACACAATCATCAATAGCATCCTAAATGAGAAAGAAGTTCAAGAAATAATTATTAAGTCTCTTGATATCATTACAATTACTGTGCCACCTGCTCTTCCTGCTGCAATGACTGCTGGGATTGTGTATGCTCAGAGAAGACTGAAAAAAGTTGGGATTTTCTGTATTAGTCCCCAGAGGATAAACATCTGTGGACAGCTGAACCTTGTTTGCTTTGACAAGACTGGAACTCTTACCGAAGATGGTTTAGATCTGTGGGGAATTCAGCGAGTGGAAAATACCCGATTTCTTTTACCAGAAGACAATGTTTGCAGTGAGATGTTGGTAAAATCTCAATTTGTTGCTTGTATGGCTACTTGTCATTCACTTACAAAAATCGAAGGTGTACTTTCTGGTGACCCACTTGATTTGAAAATGTTTGAAGCCATTGGATGGATTCTGGAAGAAGCAACTGAAGAAGAAACAGCACTTCATAACCGGATCATGCCTACTGTGGTTCGTCCTTCCAAACAACTGCTTCCTGAACCTACAACTGCAGGAAACCAAGAAATGGAGCTGTTTGAACTTCCAGCTATTTATGAGATAGGAATTGTTCGCCAGTTTCCATTTTCTTCTGCCTTGCAACGGATGAGTGTGGTTGCAAGGACACTAGGTGAGAAGAGGATGGATGCCTACATGAAGGGGGCCCCTGAGGTTGTCGCCAGTCTCTGCAAACCGGAAACAGTTCCAGTTGATTTTGAGAAAGTGTTAGAAGATTATACCAAACAAGGTTTCCGTGTAATTGCTCTTGCACACAGAAAATTGGAGTCAAAGCTGACCTGGCATAAAGTACAGCATATTAGCAGAGATGCCATTGAAAACAACATGGATTTTATGGGATTGATTATAATGCAGAACAAATTGAAGCAGGAAACCCCTGCAGTACTTGAAGATTTGCATAAAGCCAACATTCGAACTGTCATGGTCACAGGAGACAACATGTTGACGGCTGTCTCTGTGGCCAGAGACTGTGGGATGATTCTACCTCAGGATAAAGTTATTATTGCTGAAGCATTACCTCCAAAGGATGGAAAAGTTGCCAAGATCAATTGGCATTATACAGACTCCCTGTCACAGTGTAGTGAATCATCAGCCATTGACTCAGAGGCTATTCCAATCAAACTTGCCCATGATAGTTTAGAGGATCTTGAGGTGACTCGCTATCATTTTGCGATGAATGGAAAGTCATTTTCGGTGATACTGGAACATTTTCAAGATCTTGTTCCTAAGTTGATGTTGCATGGTACTGTGTTTGCTCGAATGGCACCGGATCAGAAGACACAATTGGTGGAGGCATTGCAGAACGTAGAATGCGTTATTTTACCCACCATAGCATAA
Peptide sequence:
MRYFTHHSIRYFWNDAIHNFDFLKGLDEGVSCASLYEKHSAGLTQGMHAYRKLIYGVNEIAVKVPSVFKLLIKEVLNPFYIFQLFSVILWSVDEYYYYALAIVIMSVVSIISSLYSIRKQYVMLHDMVATHSTVRVSVCRENEEIEEIFSTDLVPGDVMIIPLNGTVMPCDAVLINGTCIVNESMLTGESVPVTKTNLPNPSVDVKGMGEEQYSPETHKRHTLFCGTTVIQTRFYTGELVKAIVVRTGFSTSKGQLVRSILYPKPTDFKLYRDAYLFLLCLVVVAGIGFIYTIINSILNEKEVQEIIIKSLDIITITVPPALPAAMTAGIVYAQRRLKKVGIFCISPQRINICGQLNLVCFDKTGTLTEDGLDLWGIQRVENTRFLLPEDNVCSEMLVKSQFVACMATCHSLTKIEGVLSGDPLDLKMFEAIGWILEEATEEETALHNRIMPTVVRPSKQLLPEPTTAGNQEMELFELPAIYEIGIVRQFPFSSALQRMSVVARTLGEKRMDAYMKGAPEVVASLCKPETVPVDFEKVLEDYTKQGFRVIALAHRKLESKLTWHKVQHISRDAIENNMDFMGLIIMQNKLKQETPAVLEDLHKANIRTVMVTGDNMLTAVSVARDCGMILPQDKVIIAEALPPKDGKVAKINWHYTDSLSQCSESSAIDSEAIPIKLAHDSLEDLEVTRYHFAMNGKSFSVILEHFQDLVPKLMLHGTVFARMAPDQKTQLVEALQNVECVILPTIA
IRESfinder result
IRESfinder score
0.710882614
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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