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mmu_circ5730455P16Rik_448
Basic information of circular RNA
PanCircBase ID:
mmu_circ5730455P16Rik_448
mm39_Chr. Position ID:
chr11|80261156|80266458|-
Gene name:
5730455P16Rik
Transcript:
ENSMUST00000179332.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,3309,3745,5176
Genomic length:
5302
Exon/intron sizes in nt:
12,06,01,42,126
Flanking exon/introns:
chr11:80259418-80261156|chr11:80266458-80267628
Splice length:
448
Other database IDs:
circAtlas: mmu-5730455P16Rik_0010
Human Ortholog IDs:
Mature spliced Sequence:
CCTCTCCTTGGTGGATACTAATCTACCATCTGAAGTGGAGCCGGAACTTCGCAGTTTCATTGCTAAGCGTCTTTCCAAGGGAGCGGTCTTTGAAGGGCTGGGTAATGTTGCATCTGTAGAGCTGAGAATTCCAGGTTACCGAGTTGGTTGTTATTACTGCCTTTTCCAACAGGAAAAACTGCTTCCTGAAATAGCAGCAATGGAATCTGAACATAACCCTTCTGAATATGTGGTCTGCTTCTTAGGAGGCTCTGAAAAAGGACTGGAGACTTTCAGGCTTGAACTGGACAAGTATATTCAAGGGCTGAAGAATAACATGAATTGTGAGGAAAGGAGTCTGGGGAATGATGTAAAGTCCTATCTGAATAGCTGGTATGAGGATGTGGTGTGTCCCATCCAAAGGGTGGTTCTCCTCTTTCAGGAGAAACTGACCTTTCTGCTCCATGCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGTCCCATCCAAAGGGTG
59.89
AAGACCGCTCCCTTGGAAAG
59.96
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGTCCCATCCAAAGGGTG
59.89
CCTTCAAAGACCGCTCCCTT
59.96
158
PCR template sequence:
TGTAAAGTCCTATCTGAATAGCTGGTATGAGGATGTGGTGTGTCCCATCCAAAGGGTGGTTCTCCTCTTTCAGGAGAAACTGACCTTTCTGCTCCATGCTCCTCTCCTTGGTGGATACTAATCTACCATCTGAAGTGGAGCCGGAACTTCGCAGTTTCATTGCTAAGCGTCTTTCCAAGGGAGCGGTCTTTGAAGGGCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-223-3p(1), mmu-miR-490-3p(1), mmu-miR-323-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTGCTCCATGCTCCTCTCCTTGGTG
siRNA sets
AAGGAGAGGAGCATGGAGC, AGGAGAGGAGCATGGAGCA, CAAGGAGAGGAGCATGGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC5730455P16RIK_448_ORF_1
1.0398
0.117035954
0.602791419
453
ORF sequence:
ATGCTCCTCTCCTTGGTGGATACTAATCTACCATCTGAAGTGGAGCCGGAACTTCGCAGTTTCATTGCTAAGCGTCTTTCCAAGGGAGCGGTCTTTGAAGGGCTGGGTAATGTTGCATCTGTAGAGCTGAGAATTCCAGGTTACCGAGTTGGTTGTTATTACTGCCTTTTCCAACAGGAAAAACTGCTTCCTGAAATAGCAGCAATGGAATCTGAACATAACCCTTCTGAATATGTGGTCTGCTTCTTAGGAGGCTCTGAAAAAGGACTGGAGACTTTCAGGCTTGAACTGGACAAGTATATTCAAGGGCTGAAGAATAACATGAATTGTGAGGAAAGGAGTCTGGGGAATGATGTAAAGTCCTATCTGAATAGCTGGTATGAGGATGTGGTGTGTCCCATCCAAAGGGTGGTTCTCCTCTTTCAGGAGAAACTGACCTTTCTGCTCCATGCT
Peptide sequence:
MLLSLVDTNLPSEVEPELRSFIAKRLSKGAVFEGLGNVASVELRIPGYRVGCYYCLFQQEKLLPEIAAMESEHNPSEYVVCFLGGSEKGLETFRLELDKYIQGLKNNMNCEERSLGNDVKSYLNSWYEDVVCPIQRVVLLFQEKLTFLLHA
IRESfinder result
IRESfinder score
0.735723401
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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