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mmu_circTrp53bp1_1065
Basic information of circular RNA
PanCircBase ID:
mmu_circTrp53bp1_1065
mm39_Chr. Position ID:
chr2|121029456|121035592|-
Gene name:
Trp53bp1
Transcript:
ENSMUST00000135890.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
11,10,9,8,7,6
Exon/intron offsets:
0,631,1327,3567,5357,5944
Genomic length:
6136
Exon/intron sizes in nt:
14,62,00,95,21,62,16,100
Flanking exon/introns:
chr2:121024066-121029456|chr2:121035592-121038179
Splice length:
1065
Other database IDs:
CIRCpedia: MMU_CIRCpedia_5354, circAtlas: mmu-Trp53bp1_0008
circAtlas: hsa-TP53BP1_0011, CIRCpedia: HSA_CIRCpedia_152385
Human Ortholog IDs:
Mature spliced Sequence:
GAGTGGTGAAAGGACATAGGAAGGAGTCTGGGGAGCTGTATTACAGCATTGAAAAAGAAGGCCAAAGGAAGTGGTATAAACGAATGGCAGTCATTCTGTCCTTGGAGCAAGGAAACAGACTGAGAGAGCAATATGGGCTTGGCCCATATGAAGCTGTCACACCGCTCACGAAGGCAGCAGATATCAGCTTAGACAATTTGGTGGAAGGAAAGCGGAAACGGCGCAGTAACATCAGCTCCCCAGTCACCCCCACTGCCGCCAGTAGCAGCAGCACAACGCCCACACGTAAAGCCACGGAGAGTCCCCGTGCTTCCACGGGAGTCCCATCAGGCAAAAGGAAACTTCCGACTTCTGAAGAGGAACGCTCTCCTGCTAAGCGAGGTCGAAAGTCTGCCACCGTGAAACCTGGAACAGTGGGGGCAGCAGAGTTTGTGAGTCCCTGTGAGACTGGAGACAACATAGGTGAGCCTTCTGTCCTAGAAGAGCCAAGAGGGCCTTTGCCCCTCAACAAGACCTTGTTTCTGGGCTATGCCTTTCTCCTCACCATGGCTACAACTAGTGACAAGCTGGCCAGTCGCTCTAAGCTGCTAGATGGTCCTACAGGAAGCAGTGAAGAAGAGGAGGAATTTTTAGAAATTCCTCCTTTCAACAAGCAGTATACAGAATGCCAGCTTCGAGCAGGAGCTGGGTATATCCTTGAAGACTTCAATGAAGCCCAGTGTAACACAGCCTACCAGTGTCTCCTAATTGCGGACCAGCACTGTCGAACCCGGAAGTACTTCCTGTGCCTTGCCAGTGGCATTCCTTGTGTGTCTCATGTCTGGGTCCATGACAGTTGCCATGCCAACCAACTTCAAAACTATCGTAATTATCTGCTGCCTGCTGGGTATAGCCTTGAAGAGCAACGAATTCTGGATTGGCAACCCCGTGAAAACCCTTTCCAGAATCTGAAGGTCCTCTTGGTGTCAGATCAACAACAGAACTTCTTGGAGCTCTGGTCTGAGATCCTTATGACTGGAGGGGCAGCCTCTGTGAAGCAGCACCATTCAAGTGCCCACAACAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTGGAGCTCTGGTCTGAGA
59.92
ACCACTTCCTTTGGCCTTCT
59.15
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTGGAGCTCTGGTCTGAGA
59.92
ACCACTTCCTTTGGCCTTCTT
59.78
156
PCR template sequence:
TCAGATCAACAACAGAACTTCTTGGAGCTCTGGTCTGAGATCCTTATGACTGGAGGGGCAGCCTCTGTGAAGCAGCACCATTCAAGTGCCCACAACAAAGGAGTGGTGAAAGGACATAGGAAGGAGTCTGGGGAGCTGTATTACAGCATTGAAAAAGAAGGCCAAAGGAAGTGGTATAAACGAATGGCAGTCATTCTGTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-34c-5p(1), mmu-miR-328-3p(1), mmu-miR-214-3p(1), mmu-miR-690(1), mmu-miR-1187(1)
siRNAs for circular RNA silencing
Junction sequence
GCCCACAACAAAGGAGTGGTGAAAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRP53BP1_1065_ORF_1
0.8971
0.247311409
0.999994718
2046
ORF sequence:
ATGGCAGTCATTCTGTCCTTGGAGCAAGGAAACAGACTGAGAGAGCAATATGGGCTTGGCCCATATGAAGCTGTCACACCGCTCACGAAGGCAGCAGATATCAGCTTAGACAATTTGGTGGAAGGAAAGCGGAAACGGCGCAGTAACATCAGCTCCCCAGTCACCCCCACTGCCGCCAGTAGCAGCAGCACAACGCCCACACGTAAAGCCACGGAGAGTCCCCGTGCTTCCACGGGAGTCCCATCAGGCAAAAGGAAACTTCCGACTTCTGAAGAGGAACGCTCTCCTGCTAAGCGAGGTCGAAAGTCTGCCACCGTGAAACCTGGAACAGTGGGGGCAGCAGAGTTTGTGAGTCCCTGTGAGACTGGAGACAACATAGGTGAGCCTTCTGTCCTAGAAGAGCCAAGAGGGCCTTTGCCCCTCAACAAGACCTTGTTTCTGGGCTATGCCTTTCTCCTCACCATGGCTACAACTAGTGACAAGCTGGCCAGTCGCTCTAAGCTGCTAGATGGTCCTACAGGAAGCAGTGAAGAAGAGGAGGAATTTTTAGAAATTCCTCCTTTCAACAAGCAGTATACAGAATGCCAGCTTCGAGCAGGAGCTGGGTATATCCTTGAAGACTTCAATGAAGCCCAGTGTAACACAGCCTACCAGTGTCTCCTAATTGCGGACCAGCACTGTCGAACCCGGAAGTACTTCCTGTGCCTTGCCAGTGGCATTCCTTGTGTGTCTCATGTCTGGGTCCATGACAGTTGCCATGCCAACCAACTTCAAAACTATCGTAATTATCTGCTGCCTGCTGGGTATAGCCTTGAAGAGCAACGAATTCTGGATTGGCAACCCCGTGAAAACCCTTTCCAGAATCTGAAGGTCCTCTTGGTGTCAGATCAACAACAGAACTTCTTGGAGCTCTGGTCTGAGATCCTTATGACTGGAGGGGCAGCCTCTGTGAAGCAGCACCATTCAAGTGCCCACAACAAAGGAGTGGTGAAAGGACATAGGAAGGAGTCTGGGGAGCTGTATTACAGCATTGAAAAAGAAGGCCAAAGGAAGTGGTATAAACGAATGGCAGTCATTCTGTCCTTGGAGCAAGGAAACAGACTGAGAGAGCAATATGGGCTTGGCCCATATGAAGCTGTCACACCGCTCACGAAGGCAGCAGATATCAGCTTAGACAATTTGGTGGAAGGAAAGCGGAAACGGCGCAGTAACATCAGCTCCCCAGTCACCCCCACTGCCGCCAGTAGCAGCAGCACAACGCCCACACGTAAAGCCACGGAGAGTCCCCGTGCTTCCACGGGAGTCCCATCAGGCAAAAGGAAACTTCCGACTTCTGAAGAGGAACGCTCTCCTGCTAAGCGAGGTCGAAAGTCTGCCACCGTGAAACCTGGAACAGTGGGGGCAGCAGAGTTTGTGAGTCCCTGTGAGACTGGAGACAACATAGGTGAGCCTTCTGTCCTAGAAGAGCCAAGAGGGCCTTTGCCCCTCAACAAGACCTTGTTTCTGGGCTATGCCTTTCTCCTCACCATGGCTACAACTAGTGACAAGCTGGCCAGTCGCTCTAAGCTGCTAGATGGTCCTACAGGAAGCAGTGAAGAAGAGGAGGAATTTTTAGAAATTCCTCCTTTCAACAAGCAGTATACAGAATGCCAGCTTCGAGCAGGAGCTGGGTATATCCTTGAAGACTTCAATGAAGCCCAGTGTAACACAGCCTACCAGTGTCTCCTAATTGCGGACCAGCACTGTCGAACCCGGAAGTACTTCCTGTGCCTTGCCAGTGGCATTCCTTGTGTGTCTCATGTCTGGGTCCATGACAGTTGCCATGCCAACCAACTTCAAAACTATCGTAATTATCTGCTGCCTGCTGGGTATAGCCTTGAAGAGCAACGAATTCTGGATTGGCAACCCCGTGAAAACCCTTTCCAGAATCTGAAGGTCCTCTTGGTGTCAGATCAACAACAGAACTTCTTGGAGCTCTGGTCTGAGATCCTTATGACTGGAGGGGCAGCCTCTGTGAAGCAGCACCATTCAAGTGCCCACAACAAA
Peptide sequence:
MAVILSLEQGNRLREQYGLGPYEAVTPLTKAADISLDNLVEGKRKRRSNISSPVTPTAASSSSTTPTRKATESPRASTGVPSGKRKLPTSEEERSPAKRGRKSATVKPGTVGAAEFVSPCETGDNIGEPSVLEEPRGPLPLNKTLFLGYAFLLTMATTSDKLASRSKLLDGPTGSSEEEEEFLEIPPFNKQYTECQLRAGAGYILEDFNEAQCNTAYQCLLIADQHCRTRKYFLCLASGIPCVSHVWVHDSCHANQLQNYRNYLLPAGYSLEEQRILDWQPRENPFQNLKVLLVSDQQQNFLELWSEILMTGGAASVKQHHSSAHNKGVVKGHRKESGELYYSIEKEGQRKWYKRMAVILSLEQGNRLREQYGLGPYEAVTPLTKAADISLDNLVEGKRKRRSNISSPVTPTAASSSSTTPTRKATESPRASTGVPSGKRKLPTSEEERSPAKRGRKSATVKPGTVGAAEFVSPCETGDNIGEPSVLEEPRGPLPLNKTLFLGYAFLLTMATTSDKLASRSKLLDGPTGSSEEEEEFLEIPPFNKQYTECQLRAGAGYILEDFNEAQCNTAYQCLLIADQHCRTRKYFLCLASGIPCVSHVWVHDSCHANQLQNYRNYLLPAGYSLEEQRILDWQPRENPFQNLKVLLVSDQQQNFLELWSEILMTGGAASVKQHHSSAHNK
IRESfinder result
IRESfinder score
0.44608735
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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