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mmu_circIft80_1729
Basic information of circular RNA
PanCircBase ID:
mmu_circIft80_1729
mm39_Chr. Position ID:
chr3|68821944|68892816|-
Gene name:
Ift80
Transcript:
ENSMUST00000107812.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
14
Exon/intron indexes:
18,17,16,15,14,13,12,11,10,9,8,7,6,5
Exon/intron offsets:
0,282,1480,3345,3878,13115,16210,21235,25474,35742,47568,49011,53235,70803
Genomic length:
70872
Exon/intron sizes in nt:
173,90,172,148,136,65,164,75,119,180,138,90,110,69
Flanking exon/introns:
chr3:68805941-68821944|chr3:68892816-68895216
Splice length:
1729
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTGGAGAAGATGGACAAGTGAAAATCTGGTCAAAGACAGGGATGCTCAGATCAACTTTAGCCCAGCAAGGAACACCAGTGTACTCAGTAGCCTGGGGCCCTGATTCAGAAAAGGTTCTTTATACAGCAGGCAAACAGCTCATCATTAAACCTCTTCAACCAAATGCTAAAGTTTTACAGTGGAAAGCCCATGATGGCATCATTTTAAAAGTCGACTGGAACTCAGTGAATGACCTTATTTTATCTGCGGGTGAAGACTGTAAGTATAAGGTTTGGGATAGTTATGGCCGCGTGCTGTACGGCTCCCAGCCTCATGAGCACCCCATCACCTCAGTGGCCTGGGCTCCAGATGGGGAGTTATTTGCCGTTGGATCGTTTCATACGTTACGCTTGTGTGATAAAACTGGGTGGTCATATGCTTTAGAGAAACCCAACACTGGCAGCATATTTAACATTGCGTGGTCTATTGATGGCACTCAGATCGCGGGAGCCTGTGGGAACGGGCATGTTGTCTTTGCACATGTGGTGGAGCAGCGCTGGGAGTGGAAAAATTTTCAAGTAACGCTAACGAAGAGAAGGACCATGCAGGTTCGCAACGTTCTCAATGATGCCGTGGATCTCCTGGAGTTCCGGGACAGAGTCATTAAAGCATCCTTAAACCACGCACACTTGGTGGTCTCCACGTCCCTGCAGTGCTACGTGTTCTCTACGAAGAACTGGAATACACCACTTATATTTGATCTCAAAGAAGGAACTGTTAGTTTAATTCTGCAGGCAGAAAGACATTTTCTTCTGGTGGATGGCGGGGGTATCTACCTGCACTCTTATGAAGGGCGCTTCATTTCTTCTCCAAAGTTTCCTGGCATGAGAACAGACATCCTGAACGCTCAGACTGTGTCTCTGAGCAATGACACGATAGCAATAAAGGACAAAGCTGACGAGAAGATAATCTTCCTCTTTGAGGCGTCAACTGGAAAACCCCTAGGGGATGGGAAACTTCTTTCTCATAAGAATGAAATCTCAGAAATTGCTCTGGATCAAAAAGGACTTACCAATGACAGAAAAATTGCTTTCATTGACAAGAACAGAGATCTCTACATCACCTCTGTGAAACGATTTGGGAAAGAAGAACAGATTATTAAACTTGGAACCATGGTACATACTTTGGCATGGTGTGATACATGCAATATCCTCTGTGGAATTCAAGATACTCGATTCACAGTATGGTATTACCCTAATACCATTTATGTGGACAGAGACATTCTGCCTAAAACATTGTACGAAAGAGATGCAAGTGAATATAGTAAAAACCCGCATATAGTGAGTTTTGTTGGAAATCAGGTAACTATAAGAAGAGCTGATGGCTCCCTGGTGCACATCAGCATATCACCGTACCCCGCCATCCTCCATGAGTATGTGAGCAGCTCCAAGTGGGAAGAGGCTGTAAGGCTTTGCCGCTTTGTTAAGGAGCAAAGCATGTGGGCTTGCCTAGCGGCTATGGCTGTTGCTAATCGAGATATGGTCACTGCAGAAATAGCCTATGCAGCAGTTGGGGAAATTGATAAAGTTCGGTACATCAATGCTATAAAAGATCTTCCATCTAGAGAGTCAAAAATGGCCCACATACTCATGTTTAGTGGGAACATCCAGGAGGCTGAAACAGTCCTGCTCCAGGCTGGCCTTGTTTATCAAGCCATACAGATCAACATTAATCTCTATAACTGGGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCTGAAACAGTCCTGCTC
59.96
GGTGTTCCTTGCTGGGCTAA
60.25
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGCTGAAACAGTCCTGCT
59.96
GGTGTTCCTTGCTGGGCTAA
60.25
156
PCR template sequence:
TGTTTAGTGGGAACATCCAGGAGGCTGAAACAGTCCTGCTCCAGGCTGGCCTTGTTTATCAAGCCATACAGATCAACATTAATCTCTATAACTGGGAAAGTTGGAGAAGATGGACAAGTGAAAATCTGGTCAAAGACAGGGATGCTCAGATCAACTTTAGCCCAGCAAGGAACACCAGTGTACTCAGTAGCCTGGGGCCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-150-5p(1), mmu-miR-324-5p(1), mmu-miR-339-5p(1), mmu-miR-370-3p(1), mmu-miR-541-5p(1), mmu-miR-342-5p(1), mmu-miR-377-3p(1), mmu-miR-3087-3p(1), mmu-miR-3065-5p(1), mmu-miR-574-5p(1), mmu-miR-376a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATAACTGGGAAAGTTGGAGAAGATGG
siRNA sets
ATCTTCTCCAACTTTCCCA, TCTTCTCCAACTTTCCCAG, CCATCTTCTCCAACTTTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIFT80_1729_ORF_1
0.9167
0.127617472
0.99994603
1791
ORF sequence:
ATGCTCAGATCAACTTTAGCCCAGCAAGGAACACCAGTGTACTCAGTAGCCTGGGGCCCTGATTCAGAAAAGGTTCTTTATACAGCAGGCAAACAGCTCATCATTAAACCTCTTCAACCAAATGCTAAAGTTTTACAGTGGAAAGCCCATGATGGCATCATTTTAAAAGTCGACTGGAACTCAGTGAATGACCTTATTTTATCTGCGGGTGAAGACTGTAAGTATAAGGTTTGGGATAGTTATGGCCGCGTGCTGTACGGCTCCCAGCCTCATGAGCACCCCATCACCTCAGTGGCCTGGGCTCCAGATGGGGAGTTATTTGCCGTTGGATCGTTTCATACGTTACGCTTGTGTGATAAAACTGGGTGGTCATATGCTTTAGAGAAACCCAACACTGGCAGCATATTTAACATTGCGTGGTCTATTGATGGCACTCAGATCGCGGGAGCCTGTGGGAACGGGCATGTTGTCTTTGCACATGTGGTGGAGCAGCGCTGGGAGTGGAAAAATTTTCAAGTAACGCTAACGAAGAGAAGGACCATGCAGGTTCGCAACGTTCTCAATGATGCCGTGGATCTCCTGGAGTTCCGGGACAGAGTCATTAAAGCATCCTTAAACCACGCACACTTGGTGGTCTCCACGTCCCTGCAGTGCTACGTGTTCTCTACGAAGAACTGGAATACACCACTTATATTTGATCTCAAAGAAGGAACTGTTAGTTTAATTCTGCAGGCAGAAAGACATTTTCTTCTGGTGGATGGCGGGGGTATCTACCTGCACTCTTATGAAGGGCGCTTCATTTCTTCTCCAAAGTTTCCTGGCATGAGAACAGACATCCTGAACGCTCAGACTGTGTCTCTGAGCAATGACACGATAGCAATAAAGGACAAAGCTGACGAGAAGATAATCTTCCTCTTTGAGGCGTCAACTGGAAAACCCCTAGGGGATGGGAAACTTCTTTCTCATAAGAATGAAATCTCAGAAATTGCTCTGGATCAAAAAGGACTTACCAATGACAGAAAAATTGCTTTCATTGACAAGAACAGAGATCTCTACATCACCTCTGTGAAACGATTTGGGAAAGAAGAACAGATTATTAAACTTGGAACCATGGTACATACTTTGGCATGGTGTGATACATGCAATATCCTCTGTGGAATTCAAGATACTCGATTCACAGTATGGTATTACCCTAATACCATTTATGTGGACAGAGACATTCTGCCTAAAACATTGTACGAAAGAGATGCAAGTGAATATAGTAAAAACCCGCATATAGTGAGTTTTGTTGGAAATCAGGTAACTATAAGAAGAGCTGATGGCTCCCTGGTGCACATCAGCATATCACCGTACCCCGCCATCCTCCATGAGTATGTGAGCAGCTCCAAGTGGGAAGAGGCTGTAAGGCTTTGCCGCTTTGTTAAGGAGCAAAGCATGTGGGCTTGCCTAGCGGCTATGGCTGTTGCTAATCGAGATATGGTCACTGCAGAAATAGCCTATGCAGCAGTTGGGGAAATTGATAAAGTTCGGTACATCAATGCTATAAAAGATCTTCCATCTAGAGAGTCAAAAATGGCCCACATACTCATGTTTAGTGGGAACATCCAGGAGGCTGAAACAGTCCTGCTCCAGGCTGGCCTTGTTTATCAAGCCATACAGATCAACATTAATCTCTATAACTGGGAAAGTTGGAGAAGATGGACAAGTGAAAATCTGGTCAAAGACAGGGATGCTCAGATCAACTTTAGCCCAGCAAGGAACACCAGTGTACTCAGTAGCCTGGGGCCCTGA
Peptide sequence:
MLRSTLAQQGTPVYSVAWGPDSEKVLYTAGKQLIIKPLQPNAKVLQWKAHDGIILKVDWNSVNDLILSAGEDCKYKVWDSYGRVLYGSQPHEHPITSVAWAPDGELFAVGSFHTLRLCDKTGWSYALEKPNTGSIFNIAWSIDGTQIAGACGNGHVVFAHVVEQRWEWKNFQVTLTKRRTMQVRNVLNDAVDLLEFRDRVIKASLNHAHLVVSTSLQCYVFSTKNWNTPLIFDLKEGTVSLILQAERHFLLVDGGGIYLHSYEGRFISSPKFPGMRTDILNAQTVSLSNDTIAIKDKADEKIIFLFEASTGKPLGDGKLLSHKNEISEIALDQKGLTNDRKIAFIDKNRDLYITSVKRFGKEEQIIKLGTMVHTLAWCDTCNILCGIQDTRFTVWYYPNTIYVDRDILPKTLYERDASEYSKNPHIVSFVGNQVTIRRADGSLVHISISPYPAILHEYVSSSKWEEAVRLCRFVKEQSMWACLAAMAVANRDMVTAEIAYAAVGEIDKVRYINAIKDLPSRESKMAHILMFSGNIQEAETVLLQAGLVYQAIQININLYNWESWRRWTSENLVKDRDAQINFSPARNTSVLSSLGP
IRESfinder result
IRESfinder score
0.595193329
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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