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mmu_circIreb2_1963
Basic information of circular RNA
PanCircBase ID:
mmu_circIreb2_1963
mm39_Chr. Position ID:
chr9|54793158|54814207|+
Gene name:
Ireb2
Transcript:
ENSMUST00000034843.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
15
Exon/intron indexes:
6,7,8,9,10,11,12,13,14,15,16,17,18,19,20
Exon/intron offsets:
0,615,1393,5128,6600,9504,10565,11612,13513,14075,14573,18016,18220,20694,20926
Genomic length:
21049
Exon/intron sizes in nt:
7,01,84,14,01,72,98,11,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr9:54791399-54793158|chr9:54814207-54816025
Splice length:
1963
Other database IDs:
circAtlas: mmu-Ireb2_0001
circAtlas: hsa-IREB2_0001, CIRCpedia: HSA_CIRCpedia_130964
Human Ortholog IDs:
Mature spliced Sequence:
ACCTGAGACAGTGTTAAAAAATCAAGAAGTAGAATTTGGCAGAAATCGAGAGAGGCTTCAGTTTTTCAAGTGGAGCTCAGGAGCTTTTAAGAATGTGGCAGTCATCCCGCCTGGAACTGGAATGGCTCATCAAGTGAACTTAGAATATTTATCAAGAGTAGTTTTTGAAGAAACGGACCTGCTCTTCCCAGACAGTGTAGTTGGCACAGATTCTCATATAACCATGGTGAACGGATTGGGGATTCTTGGGTGGGGAGTTGGTGGCATTGAGACAGAGGCAGTTATGCTTGGCCTGCCAGTTACTCTTACTTTACCAGAGGTGGTTGGATGTGAGCTAACTGGGTCATCCAATGCTTTTGTTACATCCATAGATATTGTCCTTGGCATTACAAAGCACCTCAGGCAAGTAGGCGTGGCTGGAAAGTTTGTTGAGTTCTTTGGAAGTGGAGTTTCACAATTATCTATTGTCGATAGAACTACCATAGCAAACATGTGTCCAGAATATGGTGCTATCCTCAGCTTTTTCCCTGTTGACAATGTGACACTACGACATTTAGAACATACAGGTTTTGACAAAACCAAACTTGAGTCAATGGAAAAATACCTTAAAGCTGTGAAATTGTTTCGAAATGATGAGAATTCTTCAGAACCTGAATATTCTCAGGTGATACAGATTAATCTGAATTCAATAGTTGCATCTGTCAGTGGTCCAAAAAGGCCTCAGGATAGGGTTGCTGTAACAGATATGAAAAGTGATTTTCAGGCTTGCTTAAATGAAAAGGTTGGATTTAAAGGCTTCCAAGTTGCAGCAGAAAAACAAAGTGACACTGTCTCTGTTCGTTATGATGGAAGTGAGTATAAGCTGTCCCATGGATCCGTGGTCATTGCTGCAGTTATCAGTTGTACCAATAATTGCAATCCATCTGTGATGCTTGCTGCAGGTCTTCTGGCTAAAAAGGCTGTTGAAATTGGTCTACGAGTTAAACCTTATATACGAACAAGTTTGTCTCCAGGCAGTGGGATGGTTACACATTACCTCAGTTCAAGTGGAGTGCTACCCTATCTTAGCAAGCTAGGGTTTGACATAGTTGGCTATGGATGTTCAACATGTGTAGGAAATACAGCACCTTTATCAGAAGCAGTTTTGAATGCAGTAAAACAGGGTGATTTGGTTACCTGTGGAGTTTTATCTGGAAACAAACATTTCGAAGGCCGTCTCTGTGATTGTGTCCGTGCCAATTATCTCGCCTCTCCGCCCTTAGTGGTGGCTTATGCCATAGCAGGCACAGTGAATATAGACTTCCAGACAGAGCCTTTAGGTACTGACTCTACGGGCAAGGAAATTTACCTGCATGACATTTGGCCTAGTCGAGAAGAAGTTCATCAGATGGAGGAAGAACATGTTATATTGTCAATGTTTAAAACACTAAAAGAGAAAGTAGAGATGGGAAATAAACGGTGGAATTCGTTAGAAGCTCCAGACTCCGTGCTGTTTCCATGGGATGTGAAGTCTACTTACATCAGATGCCCTTCATTTTTTGATAAGCTTACCAAAGAGCCAGCTGCATCCCAGCCTATTGAGAATGCCCATGTCCTGTTGTATTTGGGAGACTCTGTCACTACAGATCATATATCACCCGCTGGAAGTATTGCTAGGAGTAGTGCTGCTGCTAAGTATTTGACAAACAGAGGCCTTACTCCCCGAGAGTTCAACTCTTATGGAGCTCGAAGAGGTAATGATGCTGTGATGACAAGAGGCACATTTGCAAACATCAAGCTTTTTAATAAGTTTATTGGGAAGCCAGCTCCCAAAACAATTCATTTTCCATCGGGACAAACGCTCGATGTATTTGAAGCTGCAGAACTGTACCAGAAAGAAGGTATCCCACTGATAATTTTAGCAGGAAAAAAATATGGTTCAGGAAATTCAAGAGATTGGGCTGCCAAGGGACCCTATTTGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAGAAAGAAGGTATCCCACTG
59.74
GCCTCTCTCGATTTCTGCCA
59.82
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGAAAGAAGGTATCCCACTGA
59.48
GCCTCTCTCGATTTCTGCCA
59.82
150
PCR template sequence:
ACTGTACCAGAAAGAAGGTATCCCACTGATAATTTTAGCAGGAAAAAAATATGGTTCAGGAAATTCAAGAGATTGGGCTGCCAAGGGACCCTATTTGCTGACCTGAGACAGTGTTAAAAAATCAAGAAGTAGAATTTGGCAGAAATCGAGAGAGGCTTCAGTTTTTCAAGTGGAGCTCAGGAGCTTTTAAGAATGTGGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(2), mmu-miR-141-3p(2), mmu-miR-335-3p(2), mmu-miR-23b-3p(1), mmu-miR-16-5p(1), mmu-miR-15b-5p(1), mmu-miR-18a-5p(1), mmu-miR-217-5p(1), mmu-miR-320-3p(1), mmu-miR-23a-3p(1), mmu-miR-10b-5p(1), mmu-miR-127-3p(1), mmu-miR-96-5p(1), mmu-miR-297a-5p(1), mmu-miR-680(1), mmu-miR-673-5p(1), mmu-miR-1904(1), mmu-miR-544-5p(1), mmu-miR-376a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCCTATTTGCTGACCTGAGACAGTG
siRNA sets
TCTCAGGTCAGCAAATAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIREB2_1963_ORF_1
1.0539
0.008072139
0.999954321
1848
ORF sequence:
ATGGCTCATCAAGTGAACTTAGAATATTTATCAAGAGTAGTTTTTGAAGAAACGGACCTGCTCTTCCCAGACAGTGTAGTTGGCACAGATTCTCATATAACCATGGTGAACGGATTGGGGATTCTTGGGTGGGGAGTTGGTGGCATTGAGACAGAGGCAGTTATGCTTGGCCTGCCAGTTACTCTTACTTTACCAGAGGTGGTTGGATGTGAGCTAACTGGGTCATCCAATGCTTTTGTTACATCCATAGATATTGTCCTTGGCATTACAAAGCACCTCAGGCAAGTAGGCGTGGCTGGAAAGTTTGTTGAGTTCTTTGGAAGTGGAGTTTCACAATTATCTATTGTCGATAGAACTACCATAGCAAACATGTGTCCAGAATATGGTGCTATCCTCAGCTTTTTCCCTGTTGACAATGTGACACTACGACATTTAGAACATACAGGTTTTGACAAAACCAAACTTGAGTCAATGGAAAAATACCTTAAAGCTGTGAAATTGTTTCGAAATGATGAGAATTCTTCAGAACCTGAATATTCTCAGGTGATACAGATTAATCTGAATTCAATAGTTGCATCTGTCAGTGGTCCAAAAAGGCCTCAGGATAGGGTTGCTGTAACAGATATGAAAAGTGATTTTCAGGCTTGCTTAAATGAAAAGGTTGGATTTAAAGGCTTCCAAGTTGCAGCAGAAAAACAAAGTGACACTGTCTCTGTTCGTTATGATGGAAGTGAGTATAAGCTGTCCCATGGATCCGTGGTCATTGCTGCAGTTATCAGTTGTACCAATAATTGCAATCCATCTGTGATGCTTGCTGCAGGTCTTCTGGCTAAAAAGGCTGTTGAAATTGGTCTACGAGTTAAACCTTATATACGAACAAGTTTGTCTCCAGGCAGTGGGATGGTTACACATTACCTCAGTTCAAGTGGAGTGCTACCCTATCTTAGCAAGCTAGGGTTTGACATAGTTGGCTATGGATGTTCAACATGTGTAGGAAATACAGCACCTTTATCAGAAGCAGTTTTGAATGCAGTAAAACAGGGTGATTTGGTTACCTGTGGAGTTTTATCTGGAAACAAACATTTCGAAGGCCGTCTCTGTGATTGTGTCCGTGCCAATTATCTCGCCTCTCCGCCCTTAGTGGTGGCTTATGCCATAGCAGGCACAGTGAATATAGACTTCCAGACAGAGCCTTTAGGTACTGACTCTACGGGCAAGGAAATTTACCTGCATGACATTTGGCCTAGTCGAGAAGAAGTTCATCAGATGGAGGAAGAACATGTTATATTGTCAATGTTTAAAACACTAAAAGAGAAAGTAGAGATGGGAAATAAACGGTGGAATTCGTTAGAAGCTCCAGACTCCGTGCTGTTTCCATGGGATGTGAAGTCTACTTACATCAGATGCCCTTCATTTTTTGATAAGCTTACCAAAGAGCCAGCTGCATCCCAGCCTATTGAGAATGCCCATGTCCTGTTGTATTTGGGAGACTCTGTCACTACAGATCATATATCACCCGCTGGAAGTATTGCTAGGAGTAGTGCTGCTGCTAAGTATTTGACAAACAGAGGCCTTACTCCCCGAGAGTTCAACTCTTATGGAGCTCGAAGAGGTAATGATGCTGTGATGACAAGAGGCACATTTGCAAACATCAAGCTTTTTAATAAGTTTATTGGGAAGCCAGCTCCCAAAACAATTCATTTTCCATCGGGACAAACGCTCGATGTATTTGAAGCTGCAGAACTGTACCAGAAAGAAGGTATCCCACTGATAATTTTAGCAGGAAAAAAATATGGTTCAGGAAATTCAAGAGATTGGGCTGCCAAGGGACCCTATTTGCTGACCTGA
Peptide sequence:
MAHQVNLEYLSRVVFEETDLLFPDSVVGTDSHITMVNGLGILGWGVGGIETEAVMLGLPVTLTLPEVVGCELTGSSNAFVTSIDIVLGITKHLRQVGVAGKFVEFFGSGVSQLSIVDRTTIANMCPEYGAILSFFPVDNVTLRHLEHTGFDKTKLESMEKYLKAVKLFRNDENSSEPEYSQVIQINLNSIVASVSGPKRPQDRVAVTDMKSDFQACLNEKVGFKGFQVAAEKQSDTVSVRYDGSEYKLSHGSVVIAAVISCTNNCNPSVMLAAGLLAKKAVEIGLRVKPYIRTSLSPGSGMVTHYLSSSGVLPYLSKLGFDIVGYGCSTCVGNTAPLSEAVLNAVKQGDLVTCGVLSGNKHFEGRLCDCVRANYLASPPLVVAYAIAGTVNIDFQTEPLGTDSTGKEIYLHDIWPSREEVHQMEEEHVILSMFKTLKEKVEMGNKRWNSLEAPDSVLFPWDVKSTYIRCPSFFDKLTKEPAASQPIENAHVLLYLGDSVTTDHISPAGSIARSSAAAKYLTNRGLTPREFNSYGARRGNDAVMTRGTFANIKLFNKFIGKPAPKTIHFPSGQTLDVFEAAELYQKEGIPLIILAGKKYGSGNSRDWAAKGPYLLT
IRESfinder result
IRESfinder score
0.715395154
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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