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mmu_circAtp13a3_671
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp13a3_671
mm39_Chr. Position ID:
chr16|30170046|30178567|-
Gene name:
Atp13a3
Transcript:
ENSMUST00000061350.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
12,11,10,9,8,7
Exon/intron offsets:
0,1039,3003,4524,5976,8440
Genomic length:
8521
Exon/intron sizes in nt:
180,132,73,135,70,81
Flanking exon/introns:
chr16:30169938-30170046|chr16:30178567-30180237
Splice length:
671
Other database IDs:
circAtlas: hsa-ATP13A3_0078
Human Ortholog IDs:
Mature spliced Sequence:
GGGACTGGATGAAGGTGTATCTTGTGCATCACTTTATGAAAAGCATAGTGCAGGACTGACACAGGGGATGCATGCCTACAGAAAGTTGATTTATGGAGTAAATGAAATTGCTGTGAAAGTGCCTTCTGTTTTTAAGCTTCTAATTAAAGAGGTTCTCAACCCATTTTACATTTTCCAGCTCTTCAGTGTTATCCTGTGGAGCGTTGATGAGTACTATTACTATGCTCTAGCCATTGTGATCATGTCCGTAGTATCCATTATAAGTTCACTATATTCCATTAGAAAGCAATATGTTATGTTACATGACATGGTGGCAACTCACAGTACCGTGAGAGTTTCAGTCTGTAGAGAAAATGAAGAAATAGAAGAGATCTTTTCTACAGACCTTGTGCCGGGAGACGTCATGATCATTCCATTAAATGGGACAGTCATGCCTTGTGATGCAGTACTTATTAATGGTACTTGCATTGTAAATGAAAGCATGTTAACAGGAGAAAGTGTTCCAGTGACAAAGACTAATTTGCCAAATCCTTCAGTGGATGTGAAAGGAATGGGGGAGGAGCAGTACAGCCCAGAGACACACAAGCGGCACACTTTGTTTTGTGGGACGACTGTTATTCAGACCCGTTTCTACACTGGAGAACTTGTGAAAGCCATAGTAGTTAGAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACAAGCGGCACACTTTGTT
60.18
CATGCATCCCCTGTGTCAGT
60.03
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACAAGCGGCACACTTTGTT
60.18
TTCTGTAGGCATGCATCCCC
59.82
174
PCR template sequence:
CCAGAGACACACAAGCGGCACACTTTGTTTTGTGGGACGACTGTTATTCAGACCCGTTTCTACACTGGAGAACTTGTGAAAGCCATAGTAGTTAGAACAGGGGACTGGATGAAGGTGTATCTTGTGCATCACTTTATGAAAAGCATAGTGCAGGACTGACACAGGGGATGCATGCCTACAGAAAGTTGATTTATGGAGTA
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-324-5p(1), mmu-miR-326-3p(1), mmu-miR-669d-5p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTAGTTAGAACAGGGGACTGGATGAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP13A3_671_ORF_1
1.0354
0.023669489
0.822328844
663
ORF sequence:
ATGCATGCCTACAGAAAGTTGATTTATGGAGTAAATGAAATTGCTGTGAAAGTGCCTTCTGTTTTTAAGCTTCTAATTAAAGAGGTTCTCAACCCATTTTACATTTTCCAGCTCTTCAGTGTTATCCTGTGGAGCGTTGATGAGTACTATTACTATGCTCTAGCCATTGTGATCATGTCCGTAGTATCCATTATAAGTTCACTATATTCCATTAGAAAGCAATATGTTATGTTACATGACATGGTGGCAACTCACAGTACCGTGAGAGTTTCAGTCTGTAGAGAAAATGAAGAAATAGAAGAGATCTTTTCTACAGACCTTGTGCCGGGAGACGTCATGATCATTCCATTAAATGGGACAGTCATGCCTTGTGATGCAGTACTTATTAATGGTACTTGCATTGTAAATGAAAGCATGTTAACAGGAGAAAGTGTTCCAGTGACAAAGACTAATTTGCCAAATCCTTCAGTGGATGTGAAAGGAATGGGGGAGGAGCAGTACAGCCCAGAGACACACAAGCGGCACACTTTGTTTTGTGGGACGACTGTTATTCAGACCCGTTTCTACACTGGAGAACTTGTGAAAGCCATAGTAGTTAGAACAGGGGACTGGATGAAGGTGTATCTTGTGCATCACTTTATGAAAAGCATAGTGCAGGACTGA
Peptide sequence:
MHAYRKLIYGVNEIAVKVPSVFKLLIKEVLNPFYIFQLFSVILWSVDEYYYYALAIVIMSVVSIISSLYSIRKQYVMLHDMVATHSTVRVSVCRENEEIEEIFSTDLVPGDVMIIPLNGTVMPCDAVLINGTCIVNESMLTGESVPVTKTNLPNPSVDVKGMGEEQYSPETHKRHTLFCGTTVIQTRFYTGELVKAIVVRTGDWMKVYLVHHFMKSIVQD
IRESfinder result
IRESfinder score
0.71153377
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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