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mmu_ciRps5_2283
Basic information of circular RNA
PanCircBase ID:
mmu_ciRps5_2283
mm39_Chr. Position ID:
chr7|12657008|12659291|+
Gene name:
Rps5
Transcript:
ENSMUST00000108539.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
2283
Exon/intron sizes in nt:
2283
Flanking exon/introns:
chr7:12657008-12659318
Splice length:
2283
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAAAGGAACTTAATGATTGTTCTTTGTGATGATTTTTTTAATTGAGACCAGGTGTGGATGAGCTTCTAGTTCAGAAAAGGGCATAAAACAACCAGTGGATGTACAAGACAGGTAGAAGAGCAATAACTGGACAGCTACACCCACGCCTAATACAAACTGGCACTAAAAGATGTTAGAGTGTGGTTTTTATCCCGTATTTTTCTAATCGTGTGTCTCTTGAGACAGAGTCAGGGTCTTGCTGTGTAGCCCTTGCTGGCTGCCTGGAGCTCTTTGAGATCTTGCCTCTGTCTCCCATGTGCCACTACACCTGACTTGATGTCCCCTTTCGTTTGTATATTCAGTTAGTGGGTATCAATTGAAAAGATGGCTTTAGTCAACTGAACCATGTTGGCACCCTTGTCAAAAGCAGTTGGTAAGCTGCTATCAGCCTACAGCAAGAGGAATTTGAGTATGAGACCAGTTGGTGCTATGAATGTTCCCTGCTGCCCTCCCCTGAAAAATGTCAGTTGGCTATGGGTACTGTTATGGCTAAGTTAGTATGGGAGCTATTTGCTTTGCCCTCATAACCCATTTTGAGGTAATCTCATATAGCTGAGACTGGCCTGAAACCCTGTCTAGTGGAAAAAGCTAATATCTGCATTCTGTCCCGAGTGCTGGGATTGAAGGTATATATCACCATTCCAAGTTTATCCCACTACTTGACATTGAACCCAGGGCTTTTTACAAAGCAAGCACCCTACCAACTCAGCTATATCTTTCGGCCCAGTTGTCTATTTTGTTCAAAGGAATTAAAGTATGTCTACTGTCTGTAAAGATACCACAGAATGAGCTTGTAAGGTGGTTCAGCCTATAAAGACAGTTACCACAAAGCCTGACAATATAAGTTTAATCCTTTGAATCCAAGGTAGAAGAATAGAACTGACAGCTGCAAATTGTCCCCTGACTTGCGTACATGCCCAAAATAGAAGGGAAAAAGAAACAGCAGGACCTAGGCATTAATCTAAAAGATTTTCAGTCTTGTCTAGTGAGTGTTTAGTTTACTTTGTGAGTTTATTTGGGGAGGTCTGCAATCCTTTTTGTGTTAGCGATTAGAGCCAGGGCTTTTTCACATGCTAGGCCAACACACATTGTTACTGAGACACAGTGTGTACACACTTCGAACTTCTTAGGCAACAGGTAGGTTAATAAATGTGGTTTTGTCTCACAGGTGGTCCAGAATAATCTGTCAAGTGCTGGTGTGCTGCCAAGTGTCCTTAAACTACACAGGACAGCCCTCCCTTCTTTGAGGAGTCCCAAGTGTCCTTAGCATCTTGAATCAATGGTGTGTGCATTTAAGCCCAGCACTCTGGCAGATCTCTAAGTATAGGACCACACTGTACTACATAGTGAATTCCAGGGCTACATGGGAGACTCTTTAAAAAATATCCATACTGAGCCGGGTGTGGTGGCGCACGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGAGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGACTACACAGAGAAACCCTGTCTTGAAAAAACAAACAAACAAAATATATCCATAGTAACATTTTTTTAAAATAATGTAGTTATTTTTATGTGTAGTGATGTTCTGTCTGTGAGGTTGTCAAATCTGCTGAAGTTACAGACAGTTGTGAGTTGCCGTGGGGGTTCTTGGAATAGAAGTTGAGTTCTTTGGAAGAGCAGTCAAAACTCTGAGCCATCTCTGCGGCCCCCCAAGCCCCAGACAGGGTTTCTCTGTAGTGTTGGTTGTCCTGTAACTGTGGAACAGGCTGGCCTTAAACTCACAGAAGTGCTCCTGCTTCTGCCTCCCAGGTGCTGAGATTAAAGGTGTGTACCATTACCGCCTGACTCAAAGTGCAGTTACTTAATACTTGTAAAAACTGAATTCTGGTCCCTTGTTTGCATATTACAGGAAGTGTTCTCTCTCCCCTTGCCCCTGAGGCAAGATCTCACTGTGCACCCCTGGCTGTTCTGAAATTCACTGTAGACCAGGCTGATCTTAAACTGCTAGAGATCCTGTCTCCCAAGTGTTAGGATGTAGAAGTGTGCACACTGCGGGCAGCACTTTCCCCTTTTATGAATGGGAGTGTGACTTAAGCAGTCACTGGTTTGGTTTTACTTTCTTAAAGCTCATGTTCACAACCTGCTGGGGACATGCCATGGCTTGAGTCAGTTCTCAGTCTCCTCTAATCTATCTGAGGCTGGTCCCACTACTGACTACTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGTTCACAACCTGCTGGGG
60.54
GCTCATCCACACCTGGTCTC
60.11
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACATGCCATGGCTTGAGTCA
59.96
AGAAGCTCATCCACACCTGG
59.38
140
PCR template sequence:
TTAAAGCTCATGTTCACAACCTGCTGGGGACATGCCATGGCTTGAGTCAGTTCTCAGTCTCCTCTAATCTATCTGAGGCTGGTCCCACTACTGACTACTCGTAAAAGGAACTTAATGATTGTTCTTTGTGATGATTTTTTTAATTGAGACCAGGTGTGGATGAGCTTCTAGTTCAGAAAAGGGCATAAAACAACCAGTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
39
Interacting miRNAs (#binding sites)
mmu-miR-709(2), mmu-miR-350-3p(2), mmu-miR-20b-5p(1), mmu-miR-134-5p(1), mmu-miR-200a-3p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-17-5p(1), mmu-miR-31-5p(1), mmu-miR-101a-3p(1), mmu-miR-26a-5p(1), mmu-miR-122-5p(1), mmu-miR-106b-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-146a-5p(1), mmu-miR-216a-5p(1), mmu-miR-185-5p(1), mmu-miR-181b-5p(1), mmu-miR-214-3p(1), mmu-miR-128-3p(1), mmu-miR-26b-5p(1), mmu-miR-382-3p(1), mmu-miR-342-5p(1), mmu-miR-27a-5p(1), mmu-miR-802-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-3087-3p(1), mmu-miR-452-3p(1), mmu-miR-3470b(1), mmu-miR-697(1), mmu-miR-3105-3p(1), mmu-miR-146b-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTACTGACTACTCGTAAAAGGAACTT
siRNA sets
GTTCCTTTTACGAGTAGTC, AAGTTCCTTTTACGAGTAG, AGTTCCTTTTACGAGTAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.792202527
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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