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mmu_circIno80_1230
Basic information of circular RNA
PanCircBase ID:
mmu_circIno80_1230
mm39_Chr. Position ID:
chr2|119272863|119284698|-
Gene name:
Ino80
Transcript:
ENSMUST00000049920.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
12,11,10,9,8,7,6,5
Exon/intron offsets:
0,2064,3078,4473,5822,7620,8947,11673
Genomic length:
11835
Exon/intron sizes in nt:
2,10,68,19,62,04,54,21,00,00,000
Flanking exon/introns:
chr2:119272174-119272863|chr2:119284698-119286865
Splice length:
1230
Other database IDs:
CIRCpedia: MMU_CIRCpedia_4756, circAtlas: mmu-Ino80_0025
circAtlas: hsa-INO80_0040
Human Ortholog IDs:
Mature spliced Sequence:
AGCATTCTTTTAAGTGATGAGTCCAGTGAGGCAGATTCTCAGAGTGAAGACAATGATGATGAAGAAGAAGAACTCAGTCTCAGCAGAGAAGAACTTCACAACATGCTTCGATTACACAAATATAAGAAACTTCACCAAAATAAATATAGTAAAGATAAGGAGTTGCAGCAGTACCAGTACTACAGTGCAGGCCTGCTCTCTACATACGACCCTTTCTATGAGCAACAGCGCCACTTGCTTGGACCCAAAAAGAAGAAATTCAAGGAAGACAAGAAGCTTAAAGCCAAGTTGAAAAAAGTGAAGAAAAAAAGAAGACGTGATGAAGAGTTTTCCTCTGAAGAATCTCCACGTCACCACCATCACCAGACCAAAGTCTTTGCTAAGTTTTCTCATGATGCACCTCCCCCTGGCACCAAGAAGAAACACTTATCCATTGAGCAGCTTAATGCCCGCCGCAGGAAAGTGTGGCTGAGCATCGTGAAAAAGGAACTACCAAAGGCCAACAAGCAGAAGTCTTCAGCTCGAAACTTATTTCTTACCAATAGCCGAAAGCTTGCCCATCAATGCATGAAGGAGGTGCGTCGAGCTGCTTTGCAAGCACAGAAAAACTGTAAGGAGACTCTGCCTCGAGCCCGGCGCCTAACAAAAGAGATGCTTCTGTACTGGAAGAAGTATGAGAAGGTGGAGAAGGAGCACCGCAAGCGAGCAGAGAAGGAAGCTCTGGAGCAGCGCAAGTTGGATGAGGAAATGCGGGAGGCCAAGAGGCAACAACGAAAACTCAACTTCTTAATCACTCAGACAGAATTGTATGCTCATTTTATGAGTCGAAAACGTGATATGGGTCATGATGGAATCCAGGAAGAAATCTTAAGGAAACTAGAAGATAGTTCTACCCAGAGACAAATTGACATTGGTGGAGGAGTGGTGGTTAACATCACCCAAGAAGACTATGATAGTAACCATTTTAAAGCCCAGGCCCTGAAGAATGCTGAAAATGCTTATCATATTCACCAAGCTCGAACAAGGTCATTTGATGAAGATGCAAAAGAAAGTCGGGCAGCTGCCCTTAGGGCAGCAGACAAGTCTGGCTCTGGGTTTGGGGAGAGTTATAGCTTAGCAAATCCATCTATCCGGGCCGGTGAGGATATTCCGCAACCCACTATTTTCAATGGCAAGTTGAAAGGTTACCAGCTGAAAGGCATGAACTGGTTAGCAAATTTATATGAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGGCCGGTGAGGATATTC
60
TGAGAATCTGCCTCACTGGAC
59.45
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCGGTGAGGATATTCCG
60
TCTGAGAATCTGCCTCACTGG
59.17
140
PCR template sequence:
CCGGGCCGGTGAGGATATTCCGCAACCCACTATTTTCAATGGCAAGTTGAAAGGTTACCAGCTGAAAGGCATGAACTGGTTAGCAAATTTATATGAACAGAGCATTCTTTTAAGTGATGAGTCCAGTGAGGCAGATTCTCAGAGTGAAGACAATGATGATGAAGAAGAAGAACTCAGTCTCAGCAGAGAAGAACTTCACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-103-3p(1), mmu-miR-298-5p(1), mmu-miR-709(1), mmu-miR-218-5p(1), mmu-miR-107-3p(1), mmu-miR-666-5p(1), mmu-miR-207(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
TTTATATGAACAGAGCATTCTTTTAA
siRNA sets
TAAAAGAATGCTCTGTTCA,TTAAAAGAATGCTCTGTTC,AAAAGAATGCTCTGTTCAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCINO80_1230_ORF_1
1.075
0.290881526
0.999999663
2358
ORF sequence:
ATGCTTCGATTACACAAATATAAGAAACTTCACCAAAATAAATATAGTAAAGATAAGGAGTTGCAGCAGTACCAGTACTACAGTGCAGGCCTGCTCTCTACATACGACCCTTTCTATGAGCAACAGCGCCACTTGCTTGGACCCAAAAAGAAGAAATTCAAGGAAGACAAGAAGCTTAAAGCCAAGTTGAAAAAAGTGAAGAAAAAAAGAAGACGTGATGAAGAGTTTTCCTCTGAAGAATCTCCACGTCACCACCATCACCAGACCAAAGTCTTTGCTAAGTTTTCTCATGATGCACCTCCCCCTGGCACCAAGAAGAAACACTTATCCATTGAGCAGCTTAATGCCCGCCGCAGGAAAGTGTGGCTGAGCATCGTGAAAAAGGAACTACCAAAGGCCAACAAGCAGAAGTCTTCAGCTCGAAACTTATTTCTTACCAATAGCCGAAAGCTTGCCCATCAATGCATGAAGGAGGTGCGTCGAGCTGCTTTGCAAGCACAGAAAAACTGTAAGGAGACTCTGCCTCGAGCCCGGCGCCTAACAAAAGAGATGCTTCTGTACTGGAAGAAGTATGAGAAGGTGGAGAAGGAGCACCGCAAGCGAGCAGAGAAGGAAGCTCTGGAGCAGCGCAAGTTGGATGAGGAAATGCGGGAGGCCAAGAGGCAACAACGAAAACTCAACTTCTTAATCACTCAGACAGAATTGTATGCTCATTTTATGAGTCGAAAACGTGATATGGGTCATGATGGAATCCAGGAAGAAATCTTAAGGAAACTAGAAGATAGTTCTACCCAGAGACAAATTGACATTGGTGGAGGAGTGGTGGTTAACATCACCCAAGAAGACTATGATAGTAACCATTTTAAAGCCCAGGCCCTGAAGAATGCTGAAAATGCTTATCATATTCACCAAGCTCGAACAAGGTCATTTGATGAAGATGCAAAAGAAAGTCGGGCAGCTGCCCTTAGGGCAGCAGACAAGTCTGGCTCTGGGTTTGGGGAGAGTTATAGCTTAGCAAATCCATCTATCCGGGCCGGTGAGGATATTCCGCAACCCACTATTTTCAATGGCAAGTTGAAAGGTTACCAGCTGAAAGGCATGAACTGGTTAGCAAATTTATATGAACAGAGCATTCTTTTAAGTGATGAGTCCAGTGAGGCAGATTCTCAGAGTGAAGACAATGATGATGAAGAAGAAGAACTCAGTCTCAGCAGAGAAGAACTTCACAACATGCTTCGATTACACAAATATAAGAAACTTCACCAAAATAAATATAGTAAAGATAAGGAGTTGCAGCAGTACCAGTACTACAGTGCAGGCCTGCTCTCTACATACGACCCTTTCTATGAGCAACAGCGCCACTTGCTTGGACCCAAAAAGAAGAAATTCAAGGAAGACAAGAAGCTTAAAGCCAAGTTGAAAAAAGTGAAGAAAAAAAGAAGACGTGATGAAGAGTTTTCCTCTGAAGAATCTCCACGTCACCACCATCACCAGACCAAAGTCTTTGCTAAGTTTTCTCATGATGCACCTCCCCCTGGCACCAAGAAGAAACACTTATCCATTGAGCAGCTTAATGCCCGCCGCAGGAAAGTGTGGCTGAGCATCGTGAAAAAGGAACTACCAAAGGCCAACAAGCAGAAGTCTTCAGCTCGAAACTTATTTCTTACCAATAGCCGAAAGCTTGCCCATCAATGCATGAAGGAGGTGCGTCGAGCTGCTTTGCAAGCACAGAAAAACTGTAAGGAGACTCTGCCTCGAGCCCGGCGCCTAACAAAAGAGATGCTTCTGTACTGGAAGAAGTATGAGAAGGTGGAGAAGGAGCACCGCAAGCGAGCAGAGAAGGAAGCTCTGGAGCAGCGCAAGTTGGATGAGGAAATGCGGGAGGCCAAGAGGCAACAACGAAAACTCAACTTCTTAATCACTCAGACAGAATTGTATGCTCATTTTATGAGTCGAAAACGTGATATGGGTCATGATGGAATCCAGGAAGAAATCTTAAGGAAACTAGAAGATAGTTCTACCCAGAGACAAATTGACATTGGTGGAGGAGTGGTGGTTAACATCACCCAAGAAGACTATGATAGTAACCATTTTAAAGCCCAGGCCCTGAAGAATGCTGAAAATGCTTATCATATTCACCAAGCTCGAACAAGGTCATTTGATGAAGATGCAAAAGAAAGTCGGGCAGCTGCCCTTAGGGCAGCAGACAAGTCTGGCTCTGGGTTTGGGGAGAGTTATAGCTTAGCAAATCCATCTATCCGGGCCGGTGAGGATATTCCGCAACCCACTATTTTCAATGGCAAGTTGAAAGGTTACCAGCTGAAAGGCATGAACTGGTTAGCAAATTTATATGAACAG
Peptide sequence:
MLRLHKYKKLHQNKYSKDKELQQYQYYSAGLLSTYDPFYEQQRHLLGPKKKKFKEDKKLKAKLKKVKKKRRRDEEFSSEESPRHHHHQTKVFAKFSHDAPPPGTKKKHLSIEQLNARRRKVWLSIVKKELPKANKQKSSARNLFLTNSRKLAHQCMKEVRRAALQAQKNCKETLPRARRLTKEMLLYWKKYEKVEKEHRKRAEKEALEQRKLDEEMREAKRQQRKLNFLITQTELYAHFMSRKRDMGHDGIQEEILRKLEDSSTQRQIDIGGGVVVNITQEDYDSNHFKAQALKNAENAYHIHQARTRSFDEDAKESRAAALRAADKSGSGFGESYSLANPSIRAGEDIPQPTIFNGKLKGYQLKGMNWLANLYEQSILLSDESSEADSQSEDNDDEEEELSLSREELHNMLRLHKYKKLHQNKYSKDKELQQYQYYSAGLLSTYDPFYEQQRHLLGPKKKKFKEDKKLKAKLKKVKKKRRRDEEFSSEESPRHHHHQTKVFAKFSHDAPPPGTKKKHLSIEQLNARRRKVWLSIVKKELPKANKQKSSARNLFLTNSRKLAHQCMKEVRRAALQAQKNCKETLPRARRLTKEMLLYWKKYEKVEKEHRKRAEKEALEQRKLDEEMREAKRQQRKLNFLITQTELYAHFMSRKRDMGHDGIQEEILRKLEDSSTQRQIDIGGGVVVNITQEDYDSNHFKAQALKNAENAYHIHQARTRSFDEDAKESRAAALRAADKSGSGFGESYSLANPSIRAGEDIPQPTIFNGKLKGYQLKGMNWLANLYEQ
IRESfinder result
IRESfinder score
0.492688781
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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