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mmu_circAtp13a3_1766
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp13a3_1766
mm39_Chr. Position ID:
chr16|30159970|30178567|-
Gene name:
Atp13a3
Transcript:
ENSMUST00000061350.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
15
Exon/intron indexes:
21,20,19,18,17,16,15,14,13,12,11,10,9,8,7
Exon/intron offsets:
0,2281,2490,2737,3369,6473,6897,8532,9810,10076,11115,13079,14600,16052,18516
Genomic length:
18597
Exon/intron sizes in nt:
125,121,154,18,117,151,62,189,158,180,132,73,135,70,81
Flanking exon/introns:
chr16:30159216-30159970|chr16:30178567-30180237
Splice length:
1766
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GGGACTGGATGAAGGTGTATCTTGTGCATCACTTTATGAAAAGCATAGTGCAGGACTGACACAGGGGATGCATGCCTACAGAAAGTTGATTTATGGAGTAAATGAAATTGCTGTGAAAGTGCCTTCTGTTTTTAAGCTTCTAATTAAAGAGGTTCTCAACCCATTTTACATTTTCCAGCTCTTCAGTGTTATCCTGTGGAGCGTTGATGAGTACTATTACTATGCTCTAGCCATTGTGATCATGTCCGTAGTATCCATTATAAGTTCACTATATTCCATTAGAAAGCAATATGTTATGTTACATGACATGGTGGCAACTCACAGTACCGTGAGAGTTTCAGTCTGTAGAGAAAATGAAGAAATAGAAGAGATCTTTTCTACAGACCTTGTGCCGGGAGACGTCATGATCATTCCATTAAATGGGACAGTCATGCCTTGTGATGCAGTACTTATTAATGGTACTTGCATTGTAAATGAAAGCATGTTAACAGGAGAAAGTGTTCCAGTGACAAAGACTAATTTGCCAAATCCTTCAGTGGATGTGAAAGGAATGGGGGAGGAGCAGTACAGCCCAGAGACACACAAGCGGCACACTTTGTTTTGTGGGACGACTGTTATTCAGACCCGTTTCTACACTGGAGAACTTGTGAAAGCCATAGTAGTTAGAACAGGATTTAGTACTTCCAAAGGACAGCTTGTTCGTTCTATACTGTATCCCAAGCCAACTGACTTTAAACTCTATAGAGATGCCTACTTGTTTCTGCTGTGTCTTGTGGTGGTGGCTGGAATTGGATTTATCTACACAATCATCAATAGCATCCTAAATGAGAAAGAAGTTCAAGAAATAATTATTAAGTCTCTTGATATCATTACAATTACTGTGCCACCTGCTCTTCCTGCTGCAATGACTGCTGGGATTGTGTATGCTCAGAGAAGACTGAAAAAAGTTGGGATTTTCTGTATTAGTCCCCAGAGGATAAACATCTGTGGACAGCTGAACCTTGTTTGCTTTGACAAGACTGGAACTCTTACCGAAGATGGTTTAGATCTGTGGGGAATTCAGCGAGTGGAAAATACCCGATTTCTTTTACCAGAAGACAATGTTTGCAGTGAGATGTTGGTAAAATCTCAATTTGTTGCTTGTATGGCTACTTGTCATTCACTTACAAAAATCGAAGGTGTACTTTCTGGTGACCCACTTGATTTGAAAATGTTTGAAGCCATTGGATGGATTCTGGAAGAAGCAACTGAAGAAGAAACAGCACTTCATAACCGGATCATGCCTACTGTGGTTCGTCCTTCCAAACAACTGCTTCCTGAACCTACAACTGCAGGAAACCAAGAAATGGAGCTGTTTGAACTTCCAGCTATTTATGAGATAGGAATTGTTCGCCAGTTTCCATTTTCTTCTGCCTTGCAACGGATGAGTGTGGTTGCAAGGACACTAGGTGAGAAGAGGATGGATGCCTACATGAAGGGGGCCCCTGAGGTTGTCGCCAGTCTCTGCAAACCGGAAACAGTTCCAGTTGATTTTGAGAAAGTGTTAGAAGATTATACCAAACAAGGTTTCCGTGTAATTGCTCTTGCACACAGAAAATTGGAGTCAAAGCTGACCTGGCATAAAGTACAGCATATTAGCAGAGATGCCATTGAAAACAACATGGATTTTATGGGATTGATTATAATGCAGAACAAATTGAAGCAGGAAACCCCTGCAGTACTTGAAGATTTGCATAAAGCCAACATTCGAACTGTCATGGTCACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAACCCCTGCAGTACTTGA
59.93
TTCTGTAGGCATGCATCCCC
59.82
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGAAACCCCTGCAGTACTTG
59.93
TTCTGTAGGCATGCATCCCC
59.82
146
PCR template sequence:
TTTATGGGATTGATTATAATGCAGAACAAATTGAAGCAGGAAACCCCTGCAGTACTTGAAGATTTGCATAAAGCCAACATTCGAACTGTCATGGTCACAGGGGACTGGATGAAGGTGTATCTTGTGCATCACTTTATGAAAAGCATAGTGCAGGACTGACACAGGGGATGCATGCCTACAGAAAGTTGATTTATGGAGTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
22
Interacting miRNAs (#binding sites)
mmu-miR-214-3p(2), 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-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-miR-136-5p(1), mmu-miR-26b-5p(1), mmu-miR-680(1), mmu-miR-29b-2-5p(1), mmu-miR-669d-5p(1), mmu-miR-188-3p(1), mmu-miR-544-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCATGGTCACAGGGGACTGGATGAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP13A3_1766_ORF_1
0.9588
0.045372357
0.999911214
1758
ORF sequence:
ATGCATGCCTACAGAAAGTTGATTTATGGAGTAAATGAAATTGCTGTGAAAGTGCCTTCTGTTTTTAAGCTTCTAATTAAAGAGGTTCTCAACCCATTTTACATTTTCCAGCTCTTCAGTGTTATCCTGTGGAGCGTTGATGAGTACTATTACTATGCTCTAGCCATTGTGATCATGTCCGTAGTATCCATTATAAGTTCACTATATTCCATTAGAAAGCAATATGTTATGTTACATGACATGGTGGCAACTCACAGTACCGTGAGAGTTTCAGTCTGTAGAGAAAATGAAGAAATAGAAGAGATCTTTTCTACAGACCTTGTGCCGGGAGACGTCATGATCATTCCATTAAATGGGACAGTCATGCCTTGTGATGCAGTACTTATTAATGGTACTTGCATTGTAAATGAAAGCATGTTAACAGGAGAAAGTGTTCCAGTGACAAAGACTAATTTGCCAAATCCTTCAGTGGATGTGAAAGGAATGGGGGAGGAGCAGTACAGCCCAGAGACACACAAGCGGCACACTTTGTTTTGTGGGACGACTGTTATTCAGACCCGTTTCTACACTGGAGAACTTGTGAAAGCCATAGTAGTTAGAACAGGATTTAGTACTTCCAAAGGACAGCTTGTTCGTTCTATACTGTATCCCAAGCCAACTGACTTTAAACTCTATAGAGATGCCTACTTGTTTCTGCTGTGTCTTGTGGTGGTGGCTGGAATTGGATTTATCTACACAATCATCAATAGCATCCTAAATGAGAAAGAAGTTCAAGAAATAATTATTAAGTCTCTTGATATCATTACAATTACTGTGCCACCTGCTCTTCCTGCTGCAATGACTGCTGGGATTGTGTATGCTCAGAGAAGACTGAAAAAAGTTGGGATTTTCTGTATTAGTCCCCAGAGGATAAACATCTGTGGACAGCTGAACCTTGTTTGCTTTGACAAGACTGGAACTCTTACCGAAGATGGTTTAGATCTGTGGGGAATTCAGCGAGTGGAAAATACCCGATTTCTTTTACCAGAAGACAATGTTTGCAGTGAGATGTTGGTAAAATCTCAATTTGTTGCTTGTATGGCTACTTGTCATTCACTTACAAAAATCGAAGGTGTACTTTCTGGTGACCCACTTGATTTGAAAATGTTTGAAGCCATTGGATGGATTCTGGAAGAAGCAACTGAAGAAGAAACAGCACTTCATAACCGGATCATGCCTACTGTGGTTCGTCCTTCCAAACAACTGCTTCCTGAACCTACAACTGCAGGAAACCAAGAAATGGAGCTGTTTGAACTTCCAGCTATTTATGAGATAGGAATTGTTCGCCAGTTTCCATTTTCTTCTGCCTTGCAACGGATGAGTGTGGTTGCAAGGACACTAGGTGAGAAGAGGATGGATGCCTACATGAAGGGGGCCCCTGAGGTTGTCGCCAGTCTCTGCAAACCGGAAACAGTTCCAGTTGATTTTGAGAAAGTGTTAGAAGATTATACCAAACAAGGTTTCCGTGTAATTGCTCTTGCACACAGAAAATTGGAGTCAAAGCTGACCTGGCATAAAGTACAGCATATTAGCAGAGATGCCATTGAAAACAACATGGATTTTATGGGATTGATTATAATGCAGAACAAATTGAAGCAGGAAACCCCTGCAGTACTTGAAGATTTGCATAAAGCCAACATTCGAACTGTCATGGTCACAGGGGACTGGATGAAGGTGTATCTTGTGCATCACTTTATGAAAAGCATAGTGCAGGACTGA
Peptide sequence:
MHAYRKLIYGVNEIAVKVPSVFKLLIKEVLNPFYIFQLFSVILWSVDEYYYYALAIVIMSVVSIISSLYSIRKQYVMLHDMVATHSTVRVSVCRENEEIEEIFSTDLVPGDVMIIPLNGTVMPCDAVLINGTCIVNESMLTGESVPVTKTNLPNPSVDVKGMGEEQYSPETHKRHTLFCGTTVIQTRFYTGELVKAIVVRTGFSTSKGQLVRSILYPKPTDFKLYRDAYLFLLCLVVVAGIGFIYTIINSILNEKEVQEIIIKSLDIITITVPPALPAAMTAGIVYAQRRLKKVGIFCISPQRINICGQLNLVCFDKTGTLTEDGLDLWGIQRVENTRFLLPEDNVCSEMLVKSQFVACMATCHSLTKIEGVLSGDPLDLKMFEAIGWILEEATEEETALHNRIMPTVVRPSKQLLPEPTTAGNQEMELFELPAIYEIGIVRQFPFSSALQRMSVVARTLGEKRMDAYMKGAPEVVASLCKPETVPVDFEKVLEDYTKQGFRVIALAHRKLESKLTWHKVQHISRDAIENNMDFMGLIIMQNKLKQETPAVLEDLHKANIRTVMVTGDWMKVYLVHHFMKSIVQD
IRESfinder result
IRESfinder score
0.723066229
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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