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mmu_circBptf_1399
Basic information of circular RNA
PanCircBase ID:
mmu_circBptf_1399
mm39_Chr. Position ID:
chr11|106944048|106949677|-
Gene name:
Bptf
Transcript:
ENSMUST00000057892.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
22,21,20,19
Exon/intron offsets:
0,1233,2649,5411
Genomic length:
5629
Exon/intron sizes in nt:
83,86,32,35,218
Flanking exon/introns:
chr11:106943840-106944048|chr11:106949677-106951297
Splice length:
1399
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCACACCCCAACAAGTTGTGACTCAAATCATCCGAGGACAGCCTGTTTCCACTGCCATCTCTGCTCCAAGTACAGCTTCCTCAGCACCTGTACAAAAGGGCTTAACTCCAGGAGCAGCGGCTGGGCCTCTGCAGCCTTCAGCCCCACACAGCCCTCGTCCTCAGCAAGGGCAGGTGAAGCTCACCATGGCTCAGCTCACTCAGCTCACGCAGGGCCATGGCGGCAACCAAGGTTTAACAGTAGTGATTCAAGGACAAGGGCAGACTACTGGACAGTTGCAGTTGATACCTCAGGGGATGACAGTCCTTCCAGGGCCAGGGCAGCAGCTCATGCAAGCTGCAATGCCGAATGGCACCGTTCAGCGTTTCCTCTTTACCCCACTATCAACATCAGCCACGGCCGCCAGCAGCAGCAGCAACAGCAGCAGCACCACTACTAATGCTACAGCAGCAGGCTCAGGGGAACAAAAACAGAGTAAAATATTACCCCAGACCCAGGTACAACCAGCCACAACCCTGGCACCAACTCAGTCATCAAGTGTGAGTCCTGCAGAAGCCCAGCCACAGCCTGCTCAGCCTGCAGCACAACCCCAGCCCCAGCCCCAGCCCCCAGCTCAGCCTGAAGTCCAGACCCAGCCAGCTGTCTCGTCCCATGTCCCTTCTGAAACACAGCCCTCCCAAGCACAGACATCTAAACCCCTGGTTGCAACACAGTGTCAGCCTCAGAGCAGTGTACAAGGACAGTCTCCTGTTCGAGTCCAGAGTCCACCACTGACTCGAATACGTCCATCAACTCCATCCCAAGTGACTCCTGGACAGCAACCCCAGGTTCAGACTACAGCTTCACAGCCGATTCCAATTCCGCCCCCCACATCTCTGCAGGCACCTTCCCAAGGCCAGCCACAGTCACAGCCCCAGGTACAGTCTTCAACTCAAACTCTTTCATCAGGACAGACATTAAATCAAGTTACTGTTCTATCTCCATCCTGTCCTCAGCCACAGCCCCAAGTCATTGCTGTGCCTCAGCTCCAGCAAGTCCAGGTTCTCTCTCAGATCCAGTCGCAGGTTGTGGCTCAGATACAGGCCCAGCAAAGTGGTGTGCCCCAGCAAATCAAACTTCAGTTGCCCATTCAAGTTCAGCAAAACAGTGCTGCGCAGACTCAGAGTGTGGTCACAGTGCAGGCAGCCAGTGTGCAGGAGCAGTTGCAGAGGGTTCAGCAACTCAGGGACCAGCAGCAAAAGAAGAAGCAGCAGATAGAAACTGAGCGTGAACACACCCTCCAAGCTTCTAACCAAAGTGAGATCATTCAGAAACAGGTGGTGATGAAGCATAATGCTGTAATAGAACATTTAAAACAGAAAAAGACCATGACTCCAGCTGAAAGAGAAGAAAATCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAACAGGTGGTGATGAAGCA
60.16
TTGGAGCAGAGATGGCAGTG
60.04
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGAAACAGGTGGTGATGAAGC
59.77
TTGGAGCAGAGATGGCAGTG
60.04
161
PCR template sequence:
AGATCATTCAGAAACAGGTGGTGATGAAGCATAATGCTGTAATAGAACATTTAAAACAGAAAAAGACCATGACTCCAGCTGAAAGAGAAGAAAATCAAAGGCACACCCCAACAAGTTGTGACTCAAATCATCCGAGGACAGCCTGTTTCCACTGCCATCTCTGCTCCAAGTACAGCTTCCTCAGCACCTGTACAAAAGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-351-5p(2), mmu-miR-125a-5p(2), mmu-miR-9-5p(1), mmu-miR-134-5p(1), mmu-miR-34c-5p(1), mmu-miR-33-5p(1), mmu-miR-18a-5p(1), mmu-miR-298-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-370-3p(1), mmu-miR-34b-5p(1), mmu-miR-1199-5p(1), mmu-miR-670-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGAAAATCAAAGGCACACCCCAACA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBPTF_1399_ORF_1
1.0013
0.127942056
0.999877252
1653
ORF sequence:
ATGGCTCAGCTCACTCAGCTCACGCAGGGCCATGGCGGCAACCAAGGTTTAACAGTAGTGATTCAAGGACAAGGGCAGACTACTGGACAGTTGCAGTTGATACCTCAGGGGATGACAGTCCTTCCAGGGCCAGGGCAGCAGCTCATGCAAGCTGCAATGCCGAATGGCACCGTTCAGCGTTTCCTCTTTACCCCACTATCAACATCAGCCACGGCCGCCAGCAGCAGCAGCAACAGCAGCAGCACCACTACTAATGCTACAGCAGCAGGCTCAGGGGAACAAAAACAGAGTAAAATATTACCCCAGACCCAGGTACAACCAGCCACAACCCTGGCACCAACTCAGTCATCAAGTGTGAGTCCTGCAGAAGCCCAGCCACAGCCTGCTCAGCCTGCAGCACAACCCCAGCCCCAGCCCCAGCCCCCAGCTCAGCCTGAAGTCCAGACCCAGCCAGCTGTCTCGTCCCATGTCCCTTCTGAAACACAGCCCTCCCAAGCACAGACATCTAAACCCCTGGTTGCAACACAGTGTCAGCCTCAGAGCAGTGTACAAGGACAGTCTCCTGTTCGAGTCCAGAGTCCACCACTGACTCGAATACGTCCATCAACTCCATCCCAAGTGACTCCTGGACAGCAACCCCAGGTTCAGACTACAGCTTCACAGCCGATTCCAATTCCGCCCCCCACATCTCTGCAGGCACCTTCCCAAGGCCAGCCACAGTCACAGCCCCAGGTACAGTCTTCAACTCAAACTCTTTCATCAGGACAGACATTAAATCAAGTTACTGTTCTATCTCCATCCTGTCCTCAGCCACAGCCCCAAGTCATTGCTGTGCCTCAGCTCCAGCAAGTCCAGGTTCTCTCTCAGATCCAGTCGCAGGTTGTGGCTCAGATACAGGCCCAGCAAAGTGGTGTGCCCCAGCAAATCAAACTTCAGTTGCCCATTCAAGTTCAGCAAAACAGTGCTGCGCAGACTCAGAGTGTGGTCACAGTGCAGGCAGCCAGTGTGCAGGAGCAGTTGCAGAGGGTTCAGCAACTCAGGGACCAGCAGCAAAAGAAGAAGCAGCAGATAGAAACTGAGCGTGAACACACCCTCCAAGCTTCTAACCAAAGTGAGATCATTCAGAAACAGGTGGTGATGAAGCATAATGCTGTAATAGAACATTTAAAACAGAAAAAGACCATGACTCCAGCTGAAAGAGAAGAAAATCAAAGGCACACCCCAACAAGTTGTGACTCAAATCATCCGAGGACAGCCTGTTTCCACTGCCATCTCTGCTCCAAGTACAGCTTCCTCAGCACCTGTACAAAAGGGCTTAACTCCAGGAGCAGCGGCTGGGCCTCTGCAGCCTTCAGCCCCACACAGCCCTCGTCCTCAGCAAGGGCAGGTGAAGCTCACCATGGCTCAGCTCACTCAGCTCACGCAGGGCCATGGCGGCAACCAAGGTTTAACAGTAGTGATTCAAGGACAAGGGCAGACTACTGGACAGTTGCAGTTGATACCTCAGGGGATGACAGTCCTTCCAGGGCCAGGGCAGCAGCTCATGCAAGCTGCAATGCCGAATGGCACCGTTCAGCGTTTCCTCTTTACCCCACTATCAACATCAGCCACGGCCGCCAGCAGCAGCAGCAACAGCAGCAGCACCACTACTAA
Peptide sequence:
MAQLTQLTQGHGGNQGLTVVIQGQGQTTGQLQLIPQGMTVLPGPGQQLMQAAMPNGTVQRFLFTPLSTSATAASSSSNSSSTTTNATAAGSGEQKQSKILPQTQVQPATTLAPTQSSSVSPAEAQPQPAQPAAQPQPQPQPPAQPEVQTQPAVSSHVPSETQPSQAQTSKPLVATQCQPQSSVQGQSPVRVQSPPLTRIRPSTPSQVTPGQQPQVQTTASQPIPIPPPTSLQAPSQGQPQSQPQVQSSTQTLSSGQTLNQVTVLSPSCPQPQPQVIAVPQLQQVQVLSQIQSQVVAQIQAQQSGVPQQIKLQLPIQVQQNSAAQTQSVVTVQAASVQEQLQRVQQLRDQQQKKKQQIETEREHTLQASNQSEIIQKQVVMKHNAVIEHLKQKKTMTPAEREENQRHTPTSCDSNHPRTACFHCHLCSKYSFLSTCTKGLNSRSSGWASAAFSPTQPSSSARAGEAHHGSAHSAHAGPWRQPRFNSSDSRTRADYWTVAVDTSGDDSPSRARAAAHASCNAEWHRSAFPLYPTINISHGRQQQQQQQQHHY
IRESfinder result
IRESfinder score
0.580991293
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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