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mmu_ciIno80_2396
Basic information of circular RNA
PanCircBase ID:
mmu_ciIno80_2396
mm39_Chr. Position ID:
chr2|119259072|119261468|-
Gene name:
Ino80
Transcript:
ENSMUST00000049920.14
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
18
Exon/intron offsets:
0
Genomic length:
2396
Exon/intron sizes in nt:
2396
Flanking exon/introns:
chr2:119259043-119261468
Splice length:
2396
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTACTGCTGTGGCTTTCCTCTTTTTGTGTAGAGTTTAAGACTCTGTAACCCAAGTCTCACATTGCAGCCTAGAATGGCCTGGGATTCTCTATGTAGTGTGGCCTCAAACAGATATTTCCAGGTTCAATTTCCCAAGTGCTGGGATTATAGGTGGCTCTGAATTTTATTTTCAATCTATTAGTATGGGCAACTATGCACAGTTTTTTTCTGTGTGAAGAATTTCTCTTTCATTATACCTACAAGAGTTAAGGGTAAAACTGTTATAAATTAGTTAATATAATGTTAATAAAGTAGCTAAATTCTCTGAGTTAAAAAGAATAGAACACTACTCTAGACAATCTAAGCAAGATGTATAAACTTAATAAAATATTACATTTTGGTTTGTAGGCATTCTGTCTTAGGTAGGGTTTCCATTGCTGTGAACAGACATCATGACCAAGGCATCTCTTATAAAGGAAAACATTTAATTGGGGCTGGCTTACCATTTCAGAAGTGTAGTTCATTTTCATCATGGCAGGAGGTATGGCAGCATGCAGTCAGGCATGGTGCTAGAAGAGCCAAGAGTTCTGCATGTTTGTCCTTAGGCAGCAGAAGGAGTCTGTCTAACTGGGTAAACTGGGTATAAAGCTTGAGTTTAGGAGACCTCAAAGCCCACCTACATAGTGCCTTACTTCTACAAAACCACATATACTCCAATAAGACTACACATCCAAGCATTGAAACACATGAATCTATAGGGGCCAAGCCTATTCAAACCACCACATTCTCATGGAAACATCACATGAAAATTATATTCATATGGAAATCGTATAACAGACCATGTTTTTTTCGTTTTTGTTTTTCTTATAATAAAAGTCAAATATTAGAGAGGTTATTTTTTATTTTTCCATCTATATTAGGATTTAAATTTTTTTCTTTTAATTTTTCTAATTATTAGATGGAAAGTTGCATACTGCAGTGAGTTTGTGGAGGCTGTAGGACAATTATGGAGTTGCTTTTTTCTTTGTTTTACCCCTGTGTGGGTTCTGGGGAAATTGGACTGCGGTCACTAGGTTTGATTGGTAAACATACTTACTCATCTACTGAACCATTTCATCAGCCTTAGGATTTGTTTCTATTGCAAACATTTTTAACCTTGTTTGTCAATAGTTTTGTACTATTTGCCTAATATTAAGAATTTGCCACATTGCTATTTTATTTTATTCGTGGTTTTTTGAGATAAGATTCCTCTATGTAGTCCTGGCTCTCTTGCAACTCACTCTTTTGACTAGCCTTGCCTTCAACTGAGAGATCTGCTTCCCTCCATTTTTCAAGTGCTGGGATTAAATGTGTGCACCACCACTTTCTGGATGCTGTGTTGCTTACTATGTAGACATAATTTGACATCTACTAATTGTAAGAAAAATTAAGTAGGGTCTGGAGAGATGACTCAGTGGTTAAGATCTCTGGCTGCTCTTTTAGAGGATCTGGGTTCAATTTCCAGAATGCACATGGCAGCTTCCAGTTGTCAGTAACTCCTGTCACTTGGCATACAACACCCCTTTCTGACCACATTAAGCACTACCTATGTACATGGTGCTCAGACATGCATGCAGCCAAGACACTTATATACCGTAAAATAAGTTAATTCTGTAAGTATAACTTTGGAGAAATGGTAGCCTACTTAGCTTTCTGTTGCTGTGACAAACTTCATGACCAAAAGCAGTGTGGGGAGGAAAGGTTCCTTGGGTTGCATGTTCCAGTCGTAGACCTCAGAAGAGGAGCAGAAGCAGAAAGCTTGAACCAGATACTGAAACGTAGACCATGGAGAAACACTGCTTTCTGGCTTGCCTTCTTGAAAGCCTTCTTGTTTTATCCAGGACTCCCTCCCTGCCCAGGGGTAGCACTGTCCATAGTGGGCTGTGGCTTCCTTAATCAATGAGTAATTCAGAAAATGGAGCCACGTGTTGTGATGTATGTTTTTAATCTCACCACTTAGGAGGCAGAGGCATGTGGATCTCTGGATTTGAGGCCAACCTGATCCATAGAGTGAGTTCTAGGATAGCCAGAGCTACATAGTGAGACCCTGTCTTGAAAGAAAAGAAAATATTCCCACAGTCCAGTCTTGATGGGAAAGAATTCCTCAGTTGGAGTTCTCTATCCCCAGGGAATGCTACTTTGTGTCAGGTTGATAAGAATTACATAGCACACTCTGGAAGTCCCTTTTAGCTTTGAGTCGATTTTTATACAGTCTCCCAAATAGGCTCTGAAAGTGTGTTCTAATGTAAACAGTCGGTATAAGATGCTTGCCTTGGAACAAGTTCATTTTTTAGAGAATCCTTGATCTCAGTGGCATTTTCAGGGTGTAGGAGAGGGGAAGGTGTTTATTTTGATTGTCTTAAGTCAGTATATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGTGGCATTTTCAGGGTGT
60.13
GGCTGCAATGTGAGACTTGG
59.48
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGGTGTAGGAGAGGGGAA
59.96
AGAGAATCCCAGGCCATTCT
58.1
148
PCR template sequence:
GGAACAAGTTCATTTTTTAGAGAATCCTTGATCTCAGTGGCATTTTCAGGGTGTAGGAGAGGGGAAGGTGTTTATTTTGATTGTCTTAAGTCAGTATATGGTAAGTACTGCTGTGGCTTTCCTCTTTTTGTGTAGAGTTTAAGACTCTGTAACCCAAGTCTCACATTGCAGCCTAGAATGGCCTGGGATTCTCTATGTAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
23
Interacting miRNAs (#binding sites)
mmu-miR-29b-3p(2), mmu-miR-29a-3p(2), mmu-miR-203-3p(2), mmu-miR-3087-3p(2), mmu-miR-1904(2), mmu-miR-29c-3p(1), mmu-miR-19a-3p(1), mmu-miR-30c-5p(1), mmu-miR-196a-5p(1), mmu-miR-136-5p(1), mmu-miR-351-5p(1), mmu-miR-22-3p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-690(1), mmu-miR-377-3p(1), mmu-miR-1198-5p(1), mmu-miR-673-5p(1), mmu-miR-532-5p(1), mmu-miR-3470b(1), mmu-miR-490-3p(1), mmu-miR-574-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGTCAGTATATGGTAAGTACTGCTG
siRNA sets
NA
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
0.876430932
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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