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mmu_circPappa2_1218
Basic information of circular RNA
PanCircBase ID:
mmu_circPappa2_1218
mm39_Chr. Position ID:
chr1|158698971|158764587|-
Gene name:
Pappa2
Transcript:
ENSMUST00000159861.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,64544
Genomic length:
65616
Exon/intron sizes in nt:
14,61,072
Flanking exon/introns:
chr1:158684997-158698971|chr1:158764587-158784086
Splice length:
1218
Other database IDs:
circAtlas: hsa-PAPPA2_0021
Human Ortholog IDs:
Mature spliced Sequence:
GTGTGTTTGATAACTGCTCCCACACAGTCAATGACAAGGGCTGGGCCCTGGGGATCCGCTCAGGGAAGGACAAGGGGTGGAGAGATGCTCGCTTCTTCTTTTCCCTCCGCACTGACCGGATGAAGAAAGCCACTATTGTGACTGGCCACAGCCGTTACCAGCCAGGCATGTGGACTCATGTAGCAGCCACTTACGATGGACAGCATACAGCTCTGTATGTGGATGGCACTCGAGTGGCTAGTAGTCGTGACCAGTTTGGACCGCTAAATAGCCCTTTCATGGCGTCTTGCCGCTCTTTAATCCTGGGAGGGGACAGCTCCGAGGATGGACATTATTTCCGTGGTTACCTGGGCACACTGGTAATCTGGTCGACCGCCCTTTCACAAACCCACCTCCAGCACAGTCCCCTGCATCCAAGTGCAGCAGATGAGTTGACCACCCTGATCCTGACAGCCACTTTCGATCCTCTGATGGAACAGTGGGCTCCATTTAGAGATGACTTATATCCCCGGCTGGAGGTTCTCCAGGACTCTGAGTCACAGCCTGAGATTCTGTCACCTTTACAACCCCCACCTTGTGGGCAAACAGCTTGTGACAATGTGGAACTCATCTCCCAGTACAATAAGCATGGGCCCCTTCGTAGAGAGAAAGTGATCCGCTACCAGGTGGTAAACATCTATGATGATGAGGGTCTGCATCCCATTGTGAGTGATCATCAGATCCGCCGTCAGCATGAGGCCCTCAACCAGGCCTTCAGCCGCTACAATATCAGCTGGCAGCTGAGTGTCCACCGAGTCCACAACTCCACCCTGCGCCACCGGGTTGTGCTTGTTAATTGTGAGCCCAGCAAGATTGGCAATGACCACTGTGACCCTGAATGTGAGCATCCACTCACCGGCTTCGATGGGGGCGATTGCCGCCTGCAGGGACGCTGCTACTCCTGGAATCGCAGGGATGGCCTCTGTCACGTGGAGTGCAACAACATGCTGAATGACTTCGATGATGGAGACTGCTGCGATCCGGAAGTGACTGATGTCCGAAAGACTTGCTTTGATCCTGACTCACCCAAGAGGGCATACATGAGTGTGAAGGAACTAAAGGAGGCCTTGCAGCTCAACAGCACTCACTTCCTTAATGTCTACTTCGCCAGCTCAGTCCGGGAAGACCTTGCAGGTTCTGCCACATGGCCCTGGGACAAGGAAGCTCTCAGTCACCTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTACTTCGCCAGCTCAGTCC
60.18
GCATCTCTCCACCCCTTGTC
60.11
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAGTCCGGGAAGACCTTG
59.75
GCATCTCTCCACCCCTTGTC
60.11
156
PCR template sequence:
AGCACTCACTTCCTTAATGTCTACTTCGCCAGCTCAGTCCGGGAAGACCTTGCAGGTTCTGCCACATGGCCCTGGGACAAGGAAGCTCTCAGTCACCTGGGTGTGTTTGATAACTGCTCCCACACAGTCAATGACAAGGGCTGGGCCCTGGGGATCCGCTCAGGGAAGGACAAGGGGTGGAGAGATGCTCGCTTCTTCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
18
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-181a-5p(1), mmu-miR-221-3p(1), mmu-miR-31-5p(1), mmu-miR-216a-5p(1), mmu-miR-222-3p(1), mmu-miR-23a-3p(1), mmu-miR-181b-5p(1), mmu-miR-127-3p(1), mmu-miR-351-5p(1), mmu-miR-22-3p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-452-3p(1), mmu-miR-670-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCAGTCACCTGGGTGTGTTTGATAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPAPPA2_1218_ORF_1
1.0067
0.338153006
0.999999573
2316
ORF sequence:
ATGAAGAAAGCCACTATTGTGACTGGCCACAGCCGTTACCAGCCAGGCATGTGGACTCATGTAGCAGCCACTTACGATGGACAGCATACAGCTCTGTATGTGGATGGCACTCGAGTGGCTAGTAGTCGTGACCAGTTTGGACCGCTAAATAGCCCTTTCATGGCGTCTTGCCGCTCTTTAATCCTGGGAGGGGACAGCTCCGAGGATGGACATTATTTCCGTGGTTACCTGGGCACACTGGTAATCTGGTCGACCGCCCTTTCACAAACCCACCTCCAGCACAGTCCCCTGCATCCAAGTGCAGCAGATGAGTTGACCACCCTGATCCTGACAGCCACTTTCGATCCTCTGATGGAACAGTGGGCTCCATTTAGAGATGACTTATATCCCCGGCTGGAGGTTCTCCAGGACTCTGAGTCACAGCCTGAGATTCTGTCACCTTTACAACCCCCACCTTGTGGGCAAACAGCTTGTGACAATGTGGAACTCATCTCCCAGTACAATAAGCATGGGCCCCTTCGTAGAGAGAAAGTGATCCGCTACCAGGTGGTAAACATCTATGATGATGAGGGTCTGCATCCCATTGTGAGTGATCATCAGATCCGCCGTCAGCATGAGGCCCTCAACCAGGCCTTCAGCCGCTACAATATCAGCTGGCAGCTGAGTGTCCACCGAGTCCACAACTCCACCCTGCGCCACCGGGTTGTGCTTGTTAATTGTGAGCCCAGCAAGATTGGCAATGACCACTGTGACCCTGAATGTGAGCATCCACTCACCGGCTTCGATGGGGGCGATTGCCGCCTGCAGGGACGCTGCTACTCCTGGAATCGCAGGGATGGCCTCTGTCACGTGGAGTGCAACAACATGCTGAATGACTTCGATGATGGAGACTGCTGCGATCCGGAAGTGACTGATGTCCGAAAGACTTGCTTTGATCCTGACTCACCCAAGAGGGCATACATGAGTGTGAAGGAACTAAAGGAGGCCTTGCAGCTCAACAGCACTCACTTCCTTAATGTCTACTTCGCCAGCTCAGTCCGGGAAGACCTTGCAGGTTCTGCCACATGGCCCTGGGACAAGGAAGCTCTCAGTCACCTGGGTGTGTTTGATAACTGCTCCCACACAGTCAATGACAAGGGCTGGGCCCTGGGGATCCGCTCAGGGAAGGACAAGGGGTGGAGAGATGCTCGCTTCTTCTTTTCCCTCCGCACTGACCGGATGAAGAAAGCCACTATTGTGACTGGCCACAGCCGTTACCAGCCAGGCATGTGGACTCATGTAGCAGCCACTTACGATGGACAGCATACAGCTCTGTATGTGGATGGCACTCGAGTGGCTAGTAGTCGTGACCAGTTTGGACCGCTAAATAGCCCTTTCATGGCGTCTTGCCGCTCTTTAATCCTGGGAGGGGACAGCTCCGAGGATGGACATTATTTCCGTGGTTACCTGGGCACACTGGTAATCTGGTCGACCGCCCTTTCACAAACCCACCTCCAGCACAGTCCCCTGCATCCAAGTGCAGCAGATGAGTTGACCACCCTGATCCTGACAGCCACTTTCGATCCTCTGATGGAACAGTGGGCTCCATTTAGAGATGACTTATATCCCCGGCTGGAGGTTCTCCAGGACTCTGAGTCACAGCCTGAGATTCTGTCACCTTTACAACCCCCACCTTGTGGGCAAACAGCTTGTGACAATGTGGAACTCATCTCCCAGTACAATAAGCATGGGCCCCTTCGTAGAGAGAAAGTGATCCGCTACCAGGTGGTAAACATCTATGATGATGAGGGTCTGCATCCCATTGTGAGTGATCATCAGATCCGCCGTCAGCATGAGGCCCTCAACCAGGCCTTCAGCCGCTACAATATCAGCTGGCAGCTGAGTGTCCACCGAGTCCACAACTCCACCCTGCGCCACCGGGTTGTGCTTGTTAATTGTGAGCCCAGCAAGATTGGCAATGACCACTGTGACCCTGAATGTGAGCATCCACTCACCGGCTTCGATGGGGGCGATTGCCGCCTGCAGGGACGCTGCTACTCCTGGAATCGCAGGGATGGCCTCTGTCACGTGGAGTGCAACAACATGCTGAATGACTTCGATGATGGAGACTGCTGCGATCCGGAAGTGACTGATGTCCGAAAGACTTGCTTTGATCCTGACTCACCCAAGAGGGCATACATGAGTGTGAAGGAACTAAAGGAGGCCTTGCAGCTCAACAGCACTCACTTCCTTAATGTCTACTTCGCCAGCTCAGTCCGGGAAGACCTTGCAGGTTCTGCCACATGGCCCTGGGACAAGGAAGCTCTCAGTCACCTG
Peptide sequence:
MKKATIVTGHSRYQPGMWTHVAATYDGQHTALYVDGTRVASSRDQFGPLNSPFMASCRSLILGGDSSEDGHYFRGYLGTLVIWSTALSQTHLQHSPLHPSAADELTTLILTATFDPLMEQWAPFRDDLYPRLEVLQDSESQPEILSPLQPPPCGQTACDNVELISQYNKHGPLRREKVIRYQVVNIYDDEGLHPIVSDHQIRRQHEALNQAFSRYNISWQLSVHRVHNSTLRHRVVLVNCEPSKIGNDHCDPECEHPLTGFDGGDCRLQGRCYSWNRRDGLCHVECNNMLNDFDDGDCCDPEVTDVRKTCFDPDSPKRAYMSVKELKEALQLNSTHFLNVYFASSVREDLAGSATWPWDKEALSHLGVFDNCSHTVNDKGWALGIRSGKDKGWRDARFFFSLRTDRMKKATIVTGHSRYQPGMWTHVAATYDGQHTALYVDGTRVASSRDQFGPLNSPFMASCRSLILGGDSSEDGHYFRGYLGTLVIWSTALSQTHLQHSPLHPSAADELTTLILTATFDPLMEQWAPFRDDLYPRLEVLQDSESQPEILSPLQPPPCGQTACDNVELISQYNKHGPLRREKVIRYQVVNIYDDEGLHPIVSDHQIRRQHEALNQAFSRYNISWQLSVHRVHNSTLRHRVVLVNCEPSKIGNDHCDPECEHPLTGFDGGDCRLQGRCYSWNRRDGLCHVECNNMLNDFDDGDCCDPEVTDVRKTCFDPDSPKRAYMSVKELKEALQLNSTHFLNVYFASSVREDLAGSATWPWDKEALSHL
IRESfinder result
IRESfinder score
0.442508682
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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