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mmu_circPtprt_1777
Basic information of circular RNA
PanCircBase ID:
mmu_circPtprt_1777
mm39_Chr. Position ID:
chr2|161652469|162204946|-
Gene name:
Ptprt
Transcript:
ENSMUST00000109443.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,1385,90898,116932,324662,427457,443203,457438,467498,552351
Genomic length:
552477
Exon/intron sizes in nt:
10,32,02,11,02,97,29,40,00,00,00,00,00,000
Flanking exon/introns:
chr2:161608417-161652469|chr2:162204946-162502719
Splice length:
1777
Other database IDs:
CIRCpedia: MMU_CIRCpedia_223539
Human Ortholog IDs:
Mature spliced Sequence:
GTGGCTGTTCTTTTGACGAACATTACAGCAACTGCGGGTATAGCGTGGCTCTGGGAACCAATGGGTTTACCTGGGAGCAGATTAACACATGGGAGAAGCCAATGCTGGACCCAGCTGTGCCCACAGGGTCCTTCATGATGGTGAACAGCTCTGGAAGGGCTTCAGGCCAGAAAGCCCATCTTCTTCTGCCAACCTTGAAGGAGAATGACACTCACTGCATTGACTTCCATTACTACTTCTCCAGTCGAGATCGCTCCAGCCCGGGAGCCTTGAATGTCTACGTGAAGGTGAATGGTGGACCCCAAGGGAACCCTGTCTGGAACGTATCTGGCGTCGTCACTGAGGGCTGGGTGAAGGCAGAGCTTGCCATCAGCACCTTCTGGCCTCATTTCTATCAGGTGATATTTGAATCCGTCTCTTTGAAAGGTCATCCTGGTTACATCGCTGTGGACGAAGTTCGGGTCCTTGCTCATCCATGCAGAAAAGCACCTCATTTCCTGCGACTCCAAAACGTTGAGGTGAATGTGGGGCAGAACGCCACGTTTCAGTGCATTGCTGGTGGAAAGTGGTCCCAGCATGACAAACTTTGGCTCCAGCAATGGAATGGCAGAGACACAGCCCTCATGGTCACCCGGGTGGTCAACCACAGACGCTTCTCAGCCACAGTGAGTGTGGCAGACACCTCTCAACGCAGTATCTCCAAGTATCGCTGCGTGATCCGCTCAGATGGTGGGTCTGGTGTGTCCAACTATGCAGAGCTGATTGTGAAAGAGCCTCCCACGCCCATTGCTCCCCCGGAACTACTGGCCGTGGGTGCCACCTACCTGTGGATTAAACCAAATGCCAACTCCATTATTGGGGATGGCCCCATCATACTGAAGGAGGTAGAATACCGCACAACCACAGGAACCTGGGCCGAGACCCACATCGTGGACTCTCCCAACTACAAGCTCTGGCATCTGGACCCTGATGTGGAGTATGAGATCCGGGTGCTGCTCACACGACCAGGAGAGGGGGGCACAGGACCACCAGGACCACCCCTAACTACCAGGACCAAGTGTGCCGATCCCGTGCATGGCCCGCAGAATGTGGAGATTGTGGACATTCGGGCTCGGCAGCTGACCCTGCAGTGGGAACCCTTTGGCTATGCAGTGACCCGCTGCCACAGCTACAACCTCACAGTGCAGTACCAGTACGTGTTCAACCAGCAGCAGTATGAAGCTGAAGAGGTGATCCAGACATCTTCCCACTATACCCTTCGGGGTCTACGGCCCTTCATGACCATCAGACTGCGGCTGCTACTGTCCAACCCTGAGGGCCGGATGGAGAGTGAGGAGTTGGTGGTACAGACAGAAGAGGATGTTCCAGGAGCTGTTCCTCTCGAGTCCATCCAAGGGGGTCCCTTTGAGGAGAAGATCTACATCCAGTGGAAACCTCCCAATGAGACCAATGGGGTCATCACACTCTATGAGATTAACTACAAGGCTGTGGGCTCACTGGATCCAAGTGCTGACCTCTCCAGCCAGAGGGGAAAGGTGTTCAAACTCCGGAATGAAACCCACCACCTCTTTGTGGGTCTGTACCCTGGGACTACCTACTCTTTCACCATCAAGGCCAGCACAGCCAAGGGCTTTGGACCCCCAGTCACTACTCGGATTGCCACCAAGATTTCAGCTCCATCAATGCCTGAATATGACGCAGATACCCCACTCAATGAAACAGATACAACCATCACGGTGATGCTCAAACCCGCCCAGTCCAGGGGAGCCCCAGTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACGCAGATACCCCACTCAA
59.46
TCTGCTCCCAGGTAAACCCA
60.47
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACGCAGATACCCCACTCA
60.61
TCTGCTCCCAGGTAAACCCA
60.47
165
PCR template sequence:
CATCAATGCCTGAATATGACGCAGATACCCCACTCAATGAAACAGATACAACCATCACGGTGATGCTCAAACCCGCCCAGTCCAGGGGAGCCCCAGTCAGGTGGCTGTTCTTTTGACGAACATTACAGCAACTGCGGGTATAGCGTGGCTCTGGGAACCAATGGGTTTACCTGGGAGCAGATTAACACATGGGAGAAGCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-16-5p(1), mmu-miR-181a-5p(1), mmu-miR-196a-5p(1), mmu-miR-181b-5p(1), mmu-miR-153-3p(1), mmu-miR-382-3p(1), mmu-miR-190b-5p(1), mmu-miR-207(1), mmu-miR-697(1), mmu-miR-296-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGCCCCAGTCAGGTGGCTGTTCTTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPTPRT_1777_ORF_1
1.0691
0.364232611
0.999968364
1692
ORF sequence:
ATGCTGGACCCAGCTGTGCCCACAGGGTCCTTCATGATGGTGAACAGCTCTGGAAGGGCTTCAGGCCAGAAAGCCCATCTTCTTCTGCCAACCTTGAAGGAGAATGACACTCACTGCATTGACTTCCATTACTACTTCTCCAGTCGAGATCGCTCCAGCCCGGGAGCCTTGAATGTCTACGTGAAGGTGAATGGTGGACCCCAAGGGAACCCTGTCTGGAACGTATCTGGCGTCGTCACTGAGGGCTGGGTGAAGGCAGAGCTTGCCATCAGCACCTTCTGGCCTCATTTCTATCAGGTGATATTTGAATCCGTCTCTTTGAAAGGTCATCCTGGTTACATCGCTGTGGACGAAGTTCGGGTCCTTGCTCATCCATGCAGAAAAGCACCTCATTTCCTGCGACTCCAAAACGTTGAGGTGAATGTGGGGCAGAACGCCACGTTTCAGTGCATTGCTGGTGGAAAGTGGTCCCAGCATGACAAACTTTGGCTCCAGCAATGGAATGGCAGAGACACAGCCCTCATGGTCACCCGGGTGGTCAACCACAGACGCTTCTCAGCCACAGTGAGTGTGGCAGACACCTCTCAACGCAGTATCTCCAAGTATCGCTGCGTGATCCGCTCAGATGGTGGGTCTGGTGTGTCCAACTATGCAGAGCTGATTGTGAAAGAGCCTCCCACGCCCATTGCTCCCCCGGAACTACTGGCCGTGGGTGCCACCTACCTGTGGATTAAACCAAATGCCAACTCCATTATTGGGGATGGCCCCATCATACTGAAGGAGGTAGAATACCGCACAACCACAGGAACCTGGGCCGAGACCCACATCGTGGACTCTCCCAACTACAAGCTCTGGCATCTGGACCCTGATGTGGAGTATGAGATCCGGGTGCTGCTCACACGACCAGGAGAGGGGGGCACAGGACCACCAGGACCACCCCTAACTACCAGGACCAAGTGTGCCGATCCCGTGCATGGCCCGCAGAATGTGGAGATTGTGGACATTCGGGCTCGGCAGCTGACCCTGCAGTGGGAACCCTTTGGCTATGCAGTGACCCGCTGCCACAGCTACAACCTCACAGTGCAGTACCAGTACGTGTTCAACCAGCAGCAGTATGAAGCTGAAGAGGTGATCCAGACATCTTCCCACTATACCCTTCGGGGTCTACGGCCCTTCATGACCATCAGACTGCGGCTGCTACTGTCCAACCCTGAGGGCCGGATGGAGAGTGAGGAGTTGGTGGTACAGACAGAAGAGGATGTTCCAGGAGCTGTTCCTCTCGAGTCCATCCAAGGGGGTCCCTTTGAGGAGAAGATCTACATCCAGTGGAAACCTCCCAATGAGACCAATGGGGTCATCACACTCTATGAGATTAACTACAAGGCTGTGGGCTCACTGGATCCAAGTGCTGACCTCTCCAGCCAGAGGGGAAAGGTGTTCAAACTCCGGAATGAAACCCACCACCTCTTTGTGGGTCTGTACCCTGGGACTACCTACTCTTTCACCATCAAGGCCAGCACAGCCAAGGGCTTTGGACCCCCAGTCACTACTCGGATTGCCACCAAGATTTCAGCTCCATCAATGCCTGAATATGACGCAGATACCCCACTCAATGAAACAGATACAACCATCACGGTGATGCTCAAACCCGCCCAGTCCAGGGGAGCCCCAGTCAGGTGGCTGTTCTTTTGA
Peptide sequence:
MLDPAVPTGSFMMVNSSGRASGQKAHLLLPTLKENDTHCIDFHYYFSSRDRSSPGALNVYVKVNGGPQGNPVWNVSGVVTEGWVKAELAISTFWPHFYQVIFESVSLKGHPGYIAVDEVRVLAHPCRKAPHFLRLQNVEVNVGQNATFQCIAGGKWSQHDKLWLQQWNGRDTALMVTRVVNHRRFSATVSVADTSQRSISKYRCVIRSDGGSGVSNYAELIVKEPPTPIAPPELLAVGATYLWIKPNANSIIGDGPIILKEVEYRTTTGTWAETHIVDSPNYKLWHLDPDVEYEIRVLLTRPGEGGTGPPGPPLTTRTKCADPVHGPQNVEIVDIRARQLTLQWEPFGYAVTRCHSYNLTVQYQYVFNQQQYEAEEVIQTSSHYTLRGLRPFMTIRLRLLLSNPEGRMESEELVVQTEEDVPGAVPLESIQGGPFEEKIYIQWKPPNETNGVITLYEINYKAVGSLDPSADLSSQRGKVFKLRNETHHLFVGLYPGTTYSFTIKASTAKGFGPPVTTRIATKISAPSMPEYDADTPLNETDTTITVMLKPAQSRGAPVRWLFF
IRESfinder result
IRESfinder score
0.452657988
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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