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mmu_circOdf2_1169
Basic information of circular RNA
PanCircBase ID:
mmu_circOdf2_1169
mm39_Chr. Position ID:
chr2|29802580|29813651|+
Gene name:
Odf2
Transcript:
ENSMUST00000113757.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
9,10,11,12,13,14,15,16,17,18
Exon/intron offsets:
0,1662,1825,2165,2639,5041,8206,8435,9644,10970
Genomic length:
11071
Exon/intron sizes in nt:
7,27,21,17,18,61,10,13,00,00,00,00,00,000
Flanking exon/introns:
chr2:29794119-29802580|chr2:29813651-29815951
Splice length:
1169
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GATTCCGAGAGACTAATGGAGCAACAAGGTACATTACTGAAGCGTCTGGCAGAGGCAGACTCAGAGAAAGCGCGCCTGCTGTTACTACTGCAAGACAAGGACAAGGAGGTGGAAGAACTCCTCCAGGAGATACAATGTGAAAAGGCTCAAGCAAAGACAGCGTCTGAGCTTTCCAAGTCCATGGAGTCCATGCGGGGGCATTTGCAGGCACAGCTTCGCTGCAAAGAGGCTGAGAACAGTCGCCTGTGCATGCAGATCAAGAACTTAGAGCGCAGTGGGAACCAGCATAAGGCGGAAGTAGAGGCCATCATGGAGCAGCTAAAGGAACTGAAGCAGAAGGGAGACCGAGACAAAGAGACCCTAAAGAAGGCCATCCGAGCCCAGAAAGAGCGAGCCGAGAAGAGTGAGGAGTATGCCGAGCAGCTGCATGTGCAACTGGCCGACAAGGACCTTTATGTTGCTGAAGCTTTATCTACTCTGGAGTCTTGGAGGAGCCGTTACAACCAGGTTGTGAAGGACAAAGGAGATCTTGAGTTGGAGATTATCGTCCTAAATGACCGGGTGACAGATCTTGTAAACCAACAACAAAGCTTGGAGGAGAAGATGCGGGAAGACCGGGACAGCTTGGTAGAGAGGCTGCACCGGCAGACGGCTGAGTACTCTGCATTCAAGCTAGAGAACGAGAGGCTCAAGGCTAGCTTTGCCCCTATGGAGGACAAGCTCAACCAGGCTCACTTGGAGGTTCAGCAGCTGAAGGCGTCAGTGAAGAACTACGAGGGGATGATAGACAACTACAAGAGCCAGGTGATGAAAACAAGATTGGAGGCTGATGAAGTGGCTGCACAGCTAGAGCGCTGCGACAAAGAGAACAAGATGCTTAAAGACGAGATGAACAAAGAGATCGAGGCGGCCCGTCGGCAGTTCCAGTCACAGCTGGCTGACCTACAACAGCTGCCTGACATCCTCAAGATCACGGAGGCCAAGCTGGCTGAGTGCCAAGACCAGCTGCAGGGCTACGAGAGGAAGAACATCGACCTCACAGCCATCATTTCAGACCTGCGCAGCCGGATCGAACATCAGGGGGACAAGCTGGAGATGGCGAGAGAGAAACATCAGGCTTCCCAGAAGGAAAATAAACAGCTGAGTCAGAAGGTGGATGAACTTGAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AACATCAGGGGGACAAGCTG
59.96
CGCTTTCTCTGAGTCTGCCT
59.75
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AACATCAGGGGGACAAGCTG
59.96
CTCTGCCAGACGCTTCAGTA
59.47
151
PCR template sequence:
TCGAACATCAGGGGGACAAGCTGGAGATGGCGAGAGAGAAACATCAGGCTTCCCAGAAGGAAAATAAACAGCTGAGTCAGAAGGTGGATGAACTTGAGAGGATTCCGAGAGACTAATGGAGCAACAAGGTACATTACTGAAGCGTCTGGCAGAGGCAGACTCAGAGAAAGCGCGCCTGCTGTTACTACTGCAAGACAAGG
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-134-5p(1), mmu-miR-136-5p(1), mmu-miR-431-5p(1), mmu-miR-96-5p(1), mmu-miR-194-5p(1), mmu-miR-335-3p(1), mmu-miR-532-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGAACTTGAGAGGATTCCGAGAGAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCODF2_1169_ORF_1
1.2169
0.536372847
0.999500473
1170
ORF sequence:
ATGGAGCAACAAGGTACATTACTGAAGCGTCTGGCAGAGGCAGACTCAGAGAAAGCGCGCCTGCTGTTACTACTGCAAGACAAGGACAAGGAGGTGGAAGAACTCCTCCAGGAGATACAATGTGAAAAGGCTCAAGCAAAGACAGCGTCTGAGCTTTCCAAGTCCATGGAGTCCATGCGGGGGCATTTGCAGGCACAGCTTCGCTGCAAAGAGGCTGAGAACAGTCGCCTGTGCATGCAGATCAAGAACTTAGAGCGCAGTGGGAACCAGCATAAGGCGGAAGTAGAGGCCATCATGGAGCAGCTAAAGGAACTGAAGCAGAAGGGAGACCGAGACAAAGAGACCCTAAAGAAGGCCATCCGAGCCCAGAAAGAGCGAGCCGAGAAGAGTGAGGAGTATGCCGAGCAGCTGCATGTGCAACTGGCCGACAAGGACCTTTATGTTGCTGAAGCTTTATCTACTCTGGAGTCTTGGAGGAGCCGTTACAACCAGGTTGTGAAGGACAAAGGAGATCTTGAGTTGGAGATTATCGTCCTAAATGACCGGGTGACAGATCTTGTAAACCAACAACAAAGCTTGGAGGAGAAGATGCGGGAAGACCGGGACAGCTTGGTAGAGAGGCTGCACCGGCAGACGGCTGAGTACTCTGCATTCAAGCTAGAGAACGAGAGGCTCAAGGCTAGCTTTGCCCCTATGGAGGACAAGCTCAACCAGGCTCACTTGGAGGTTCAGCAGCTGAAGGCGTCAGTGAAGAACTACGAGGGGATGATAGACAACTACAAGAGCCAGGTGATGAAAACAAGATTGGAGGCTGATGAAGTGGCTGCACAGCTAGAGCGCTGCGACAAAGAGAACAAGATGCTTAAAGACGAGATGAACAAAGAGATCGAGGCGGCCCGTCGGCAGTTCCAGTCACAGCTGGCTGACCTACAACAGCTGCCTGACATCCTCAAGATCACGGAGGCCAAGCTGGCTGAGTGCCAAGACCAGCTGCAGGGCTACGAGAGGAAGAACATCGACCTCACAGCCATCATTTCAGACCTGCGCAGCCGGATCGAACATCAGGGGGACAAGCTGGAGATGGCGAGAGAGAAACATCAGGCTTCCCAGAAGGAAAATAAACAGCTGAGTCAGAAGGTGGATGAACTTGAGAGGATTCCGAGAGACTAA
Peptide sequence:
MEQQGTLLKRLAEADSEKARLLLLLQDKDKEVEELLQEIQCEKAQAKTASELSKSMESMRGHLQAQLRCKEAENSRLCMQIKNLERSGNQHKAEVEAIMEQLKELKQKGDRDKETLKKAIRAQKERAEKSEEYAEQLHVQLADKDLYVAEALSTLESWRSRYNQVVKDKGDLELEIIVLNDRVTDLVNQQQSLEEKMREDRDSLVERLHRQTAEYSAFKLENERLKASFAPMEDKLNQAHLEVQQLKASVKNYEGMIDNYKSQVMKTRLEADEVAAQLERCDKENKMLKDEMNKEIEAARRQFQSQLADLQQLPDILKITEAKLAECQDQLQGYERKNIDLTAIISDLRSRIEHQGDKLEMAREKHQASQKENKQLSQKVDELERIPRD
IRESfinder result
IRESfinder score
0.240876499
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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