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mmu_circAtp13a3_601
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp13a3_601
mm39_Chr. Position ID:
chr16|30173049|30180802|-
Gene name:
Atp13a3
Transcript:
ENSMUST00000061350.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
10,9,8,7,6,5
Exon/intron offsets:
0,1521,2973,5437,7188,7582
Genomic length:
7753
Exon/intron sizes in nt:
7,31,35,70,81,71,171
Flanking exon/introns:
chr16:30171217-30173049|chr16:30180802-30181393
Splice length:
601
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GATGAATTTAGAGTATGGTTTTGTGCAAAAATTCACTTTCTTCCTGTGGAGAATCAACCAAATTTGAATGCAAAATGTTTAGTTAATGAGGTTTCTAATGGCCATGCTGTTCATCTGACTGAAGAAAATAGATGCGAGATGAATAAATACTCACAGAGTCAGTCACAACAGATGCGTTATTTTACCCACCATAGCATAAGATATTTCTGGAATGATGCCATTCACAATTTTGATTTCTTAAAGGGACTGGATGAAGGTGTATCTTGTGCATCACTTTATGAAAAGCATAGTGCAGGACTGACACAGGGGATGCATGCCTACAGAAAGTTGATTTATGGAGTAAATGAAATTGCTGTGAAAGTGCCTTCTGTTTTTAAGCTTCTAATTAAAGAGGTTCTCAACCCATTTTACATTTTCCAGCTCTTCAGTGTTATCCTGTGGAGCGTTGATGAGTACTATTACTATGCTCTAGCCATTGTGATCATGTCCGTAGTATCCATTATAAGTTCACTATATTCCATTAGAAAGCAATATGTTATGTTACATGACATGGTGGCAACTCACAGTACCGTGAGAGTTTCAGTCTGTAGAGAAAATGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTGGCAACTCACAGTACC
59.89
ACCTCATTAACTAAACATTTTGCA
55.52
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACATGGTGGCAACTCACA
59.82
ACCTCATTAACTAAACATTTTGCA
55.52
148
PCR template sequence:
ATAAGTTCACTATATTCCATTAGAAAGCAATATGTTATGTTACATGACATGGTGGCAACTCACAGTACCGTGAGAGTTTCAGTCTGTAGAGAAAATGAAGGATGAATTTAGAGTATGGTTTTGTGCAAAAATTCACTTTCTTCCTGTGGAGAATCAACCAAATTTGAATGCAAAATGTTTAGTTAATGAGGTTTCTAATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-137-3p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-203-3p(1), mmu-miR-324-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAGAAAATGAAGGATGAATTTAGAG
siRNA sets
ATTCATCCTTCATTTTCTC,AATTCATCCTTCATTTTCT,TTCATCCTTCATTTTCTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP13A3_601_ORF_1
0.8521
-0.064290193
0.604352276
606
ORF sequence:
ATGAAGGATGAATTTAGAGTATGGTTTTGTGCAAAAATTCACTTTCTTCCTGTGGAGAATCAACCAAATTTGAATGCAAAATGTTTAGTTAATGAGGTTTCTAATGGCCATGCTGTTCATCTGACTGAAGAAAATAGATGCGAGATGAATAAATACTCACAGAGTCAGTCACAACAGATGCGTTATTTTACCCACCATAGCATAAGATATTTCTGGAATGATGCCATTCACAATTTTGATTTCTTAAAGGGACTGGATGAAGGTGTATCTTGTGCATCACTTTATGAAAAGCATAGTGCAGGACTGACACAGGGGATGCATGCCTACAGAAAGTTGATTTATGGAGTAAATGAAATTGCTGTGAAAGTGCCTTCTGTTTTTAAGCTTCTAATTAAAGAGGTTCTCAACCCATTTTACATTTTCCAGCTCTTCAGTGTTATCCTGTGGAGCGTTGATGAGTACTATTACTATGCTCTAGCCATTGTGATCATGTCCGTAGTATCCATTATAAGTTCACTATATTCCATTAGAAAGCAATATGTTATGTTACATGACATGGTGGCAACTCACAGTACCGTGAGAGTTTCAGTCTGTAGAGAAAATGAA
Peptide sequence:
MKDEFRVWFCAKIHFLPVENQPNLNAKCLVNEVSNGHAVHLTEENRCEMNKYSQSQSQQMRYFTHHSIRYFWNDAIHNFDFLKGLDEGVSCASLYEKHSAGLTQGMHAYRKLIYGVNEIAVKVPSVFKLLIKEVLNPFYIFQLFSVILWSVDEYYYYALAIVIMSVVSIISSLYSIRKQYVMLHDMVATHSTVRVSVCRENE
IRESfinder result
IRESfinder score
0.706720249
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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