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mmu_circOdad2_526
Basic information of circular RNA
PanCircBase ID:
mmu_circOdad2_526
mm39_Chr. Position ID:
chr18|7127211|7181848|-
Gene name:
Odad2
Transcript:
ENSMUST00000234788.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
20,19,18
Exon/intron offsets:
0,2187,54522
Genomic length:
54637
Exon/intron sizes in nt:
22,21,89,115
Flanking exon/introns:
chr18:7088567-7127211|chr18:7181848-7211398
Splice length:
526
Other database IDs:
circAtlas: mmu-Armc4_0003
circBase: hsa_circ_0018045, CIRCpedia: HSA_CIRCpedia_1375
Human Ortholog IDs:
Mature spliced Sequence:
GATAATTGACCGCTTAGATGGAGTTCGCTTATTGTGGTCCCTGCTCAAAAACCCACACCCAGATGTGAAGGCCAGTGCAGCATGGGCACTTTGTCCCTGCATTGAAAATGCAAAGGATGCTGGAGAAATGGTTCGTTCCTTTGTTGGTGGTTTGGAACTTGTTGTCAACTTACTGAAGTCAGATAATAAAGAGGTCCTGGCCAGTGTCTGTGCTGCTATCACCAACATAGCAAAAGACCAGGAGAACTTAGCTGTTATTACAGACCATGGAGTCGTTCCTCTATTGTCCAAACTTGCCAATACAAATAATGACAAGCTGAGGCGTCACCTGGCAGAAGCCATCTCACGATGTTGTATGTGGGGAAGGAACAGAGTGGCCTTCGGAGAACACAAGGCAGTGGCTCCACTGGTGCGTTATCTGAAGTCAAATGACACCAATGTGCATCGAGCTACAGCTCAGGCCTTGTACCAGCTCTCAGAAGATGCTGATAACTGCATCACTATGCACGAGAATGGTGCTGTAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACACCAATGTGCATCGAGC
59.9
TGTGGGTTTTTGAGCAGGGA
59.74
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACACCAATGTGCATCGAGC
59.9
CTGCACTGGCCTTCACATCT
60.32
176
PCR template sequence:
AAATGACACCAATGTGCATCGAGCTACAGCTCAGGCCTTGTACCAGCTCTCAGAAGATGCTGATAACTGCATCACTATGCACGAGAATGGTGCTGTAAAGGATAATTGACCGCTTAGATGGAGTTCGCTTATTGTGGTCCCTGCTCAAAAACCCACACCCAGATGTGAAGGCCAGTGCAGCATGGGCACTTTGTCCCTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-15b-5p(1), mmu-miR-106b-5p(1), mmu-miR-29b-3p(1), mmu-miR-29c-3p(1), mmu-miR-338-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGTGCTGTAAAGGATAATTGACCGC
siRNA sets
AATTATCCTTTACAGCACC, CAATTATCCTTTACAGCAC, ATTATCCTTTACAGCACCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCODAD2_526_ORF_1
1.1204
0.192995599
0.633946756
408
ORF sequence:
ATGGTTCGTTCCTTTGTTGGTGGTTTGGAACTTGTTGTCAACTTACTGAAGTCAGATAATAAAGAGGTCCTGGCCAGTGTCTGTGCTGCTATCACCAACATAGCAAAAGACCAGGAGAACTTAGCTGTTATTACAGACCATGGAGTCGTTCCTCTATTGTCCAAACTTGCCAATACAAATAATGACAAGCTGAGGCGTCACCTGGCAGAAGCCATCTCACGATGTTGTATGTGGGGAAGGAACAGAGTGGCCTTCGGAGAACACAAGGCAGTGGCTCCACTGGTGCGTTATCTGAAGTCAAATGACACCAATGTGCATCGAGCTACAGCTCAGGCCTTGTACCAGCTCTCAGAAGATGCTGATAACTGCATCACTATGCACGAGAATGGTGCTGTAAAGGATAATTGA
Peptide sequence:
MVRSFVGGLELVVNLLKSDNKEVLASVCAAITNIAKDQENLAVITDHGVVPLLSKLANTNNDKLRRHLAEAISRCCMWGRNRVAFGEHKAVAPLVRYLKSNDTNVHRATAQALYQLSEDADNCITMHENGAVKDN
IRESfinder result
IRESfinder score
0.458551093
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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