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mmu_circAtp13a3_702
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp13a3_702
mm39_Chr. Position ID:
chr16|30174570|30181567|-
Gene name:
Atp13a3
Transcript:
ENSMUST00000061350.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
9,8,7,6,5,4
Exon/intron offsets:
0,1452,3916,5667,6061,6823
Genomic length:
6997
Exon/intron sizes in nt:
135,70,81,71,171,174
Flanking exon/introns:
chr16:30173122-30174570|chr16:30181567-30185652
Splice length:
702
Other database IDs:
CIRCpedia: MMU_CIRCpedia_15799, circAtlas: mmu-Atp13a3_0020
CIRCpedia: HSA_CIRCpedia_374732
Human Ortholog IDs:
Mature spliced Sequence:
GAGATACATGGCTATAACTTATGCCGCTGGAAGCTTGCCATGGTTTTTGTAGGAGTGATTTGTACTGGTGGTTTTCTCCTCCTCCTCCTCTACTGGCTGCCTGAGTGGCGAGTGAAAGCCACATGTGTTAGAGCTGCAGTTAAAGACTGTGAAGTGGTGCTTCTCAGGACAACTGATGAATTTAGAGTATGGTTTTGTGCAAAAATTCACTTTCTTCCTGTGGAGAATCAACCAAATTTGAATGCAAAATGTTTAGTTAATGAGGTTTCTAATGGCCATGCTGTTCATCTGACTGAAGAAAATAGATGCGAGATGAATAAATACTCACAGAGTCAGTCACAACAGATGCGTTATTTTACCCACCATAGCATAAGATATTTCTGGAATGATGCCATTCACAATTTTGATTTCTTAAAGGGACTGGATGAAGGTGTATCTTGTGCATCACTTTATGAAAAGCATAGTGCAGGACTGACACAGGGGATGCATGCCTACAGAAAGTTGATTTATGGAGTAAATGAAATTGCTGTGAAAGTGCCTTCTGTTTTTAAGCTTCTAATTAAAGAGGTTCTCAACCCATTTTACATTTTCCAGCTCTTCAGTGTTATCCTGTGGAGCGTTGATGAGTACTATTACTATGCTCTAGCCATTGTGATCATGTCCGTAGTATCCATTATAAGTTCACTATATTCCATTAGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGTGGAGCGTTGATGAGT
60.04
AAACCATGGCAAGCTTCCAG
59.03
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGTGGAGCGTTGATGAGT
60.04
GGAGGAGGAGAAAACCACCAG
60
179
PCR template sequence:
TGTTATCCTGTGGAGCGTTGATGAGTACTATTACTATGCTCTAGCCATTGTGATCATGTCCGTAGTATCCATTATAAGTTCACTATATTCCATTAGAAAGGAGATACATGGCTATAACTTATGCCGCTGGAAGCTTGCCATGGTTTTTGTAGGAGTGATTTGTACTGGTGGTTTTCTCCTCCTCCTCCTCTACTGGCTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(2), mmu-miR-27a-3p(2), mmu-miR-19b-3p(1), mmu-miR-29b-3p(1), mmu-miR-29c-3p(1), mmu-miR-203-3p(1), mmu-miR-324-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCCATTAGAAAGGAGATACATGGCT
siRNA sets
ATGTATCTCCTTTCTAATG, TGTATCTCCTTTCTAATGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP13A3_702_ORF_1
0.8386
-0.067808212
0.99714726
1365
ORF sequence:
ATGGTTTTTGTAGGAGTGATTTGTACTGGTGGTTTTCTCCTCCTCCTCCTCTACTGGCTGCCTGAGTGGCGAGTGAAAGCCACATGTGTTAGAGCTGCAGTTAAAGACTGTGAAGTGGTGCTTCTCAGGACAACTGATGAATTTAGAGTATGGTTTTGTGCAAAAATTCACTTTCTTCCTGTGGAGAATCAACCAAATTTGAATGCAAAATGTTTAGTTAATGAGGTTTCTAATGGCCATGCTGTTCATCTGACTGAAGAAAATAGATGCGAGATGAATAAATACTCACAGAGTCAGTCACAACAGATGCGTTATTTTACCCACCATAGCATAAGATATTTCTGGAATGATGCCATTCACAATTTTGATTTCTTAAAGGGACTGGATGAAGGTGTATCTTGTGCATCACTTTATGAAAAGCATAGTGCAGGACTGACACAGGGGATGCATGCCTACAGAAAGTTGATTTATGGAGTAAATGAAATTGCTGTGAAAGTGCCTTCTGTTTTTAAGCTTCTAATTAAAGAGGTTCTCAACCCATTTTACATTTTCCAGCTCTTCAGTGTTATCCTGTGGAGCGTTGATGAGTACTATTACTATGCTCTAGCCATTGTGATCATGTCCGTAGTATCCATTATAAGTTCACTATATTCCATTAGAAAGGAGATACATGGCTATAACTTATGCCGCTGGAAGCTTGCCATGGTTTTTGTAGGAGTGATTTGTACTGGTGGTTTTCTCCTCCTCCTCCTCTACTGGCTGCCTGAGTGGCGAGTGAAAGCCACATGTGTTAGAGCTGCAGTTAAAGACTGTGAAGTGGTGCTTCTCAGGACAACTGATGAATTTAGAGTATGGTTTTGTGCAAAAATTCACTTTCTTCCTGTGGAGAATCAACCAAATTTGAATGCAAAATGTTTAGTTAATGAGGTTTCTAATGGCCATGCTGTTCATCTGACTGAAGAAAATAGATGCGAGATGAATAAATACTCACAGAGTCAGTCACAACAGATGCGTTATTTTACCCACCATAGCATAAGATATTTCTGGAATGATGCCATTCACAATTTTGATTTCTTAAAGGGACTGGATGAAGGTGTATCTTGTGCATCACTTTATGAAAAGCATAGTGCAGGACTGACACAGGGGATGCATGCCTACAGAAAGTTGATTTATGGAGTAAATGAAATTGCTGTGAAAGTGCCTTCTGTTTTTAAGCTTCTAATTAAAGAGGTTCTCAACCCATTTTACATTTTCCAGCTCTTCAGTGTTATCCTGTGGAGCGTTGATGAGTACTATTACTATGCTCTAGCCATTGTGATCATGTCCGTAGTATCCATTATAAGTTCACTATATTCCATTAGAAAG
Peptide sequence:
MVFVGVICTGGFLLLLLYWLPEWRVKATCVRAAVKDCEVVLLRTTDEFRVWFCAKIHFLPVENQPNLNAKCLVNEVSNGHAVHLTEENRCEMNKYSQSQSQQMRYFTHHSIRYFWNDAIHNFDFLKGLDEGVSCASLYEKHSAGLTQGMHAYRKLIYGVNEIAVKVPSVFKLLIKEVLNPFYIFQLFSVILWSVDEYYYYALAIVIMSVVSIISSLYSIRKEIHGYNLCRWKLAMVFVGVICTGGFLLLLLYWLPEWRVKATCVRAAVKDCEVVLLRTTDEFRVWFCAKIHFLPVENQPNLNAKCLVNEVSNGHAVHLTEENRCEMNKYSQSQSQQMRYFTHHSIRYFWNDAIHNFDFLKGLDEGVSCASLYEKHSAGLTQGMHAYRKLIYGVNEIAVKVPSVFKLLIKEVLNPFYIFQLFSVILWSVDEYYYYALAIVIMSVVSIISSLYSIRK
IRESfinder result
IRESfinder score
0.674071801
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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