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mmu_circAppl2_1475
Basic information of circular RNA
PanCircBase ID:
mmu_circAppl2_1475
mm39_Chr. Position ID:
chr10|83441623|83464697|-
Gene name:
Appl2
Transcript:
ENSMUST00000020500.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
15
Exon/intron indexes:
17,16,15,14,13,12,11,10,9,8,7,6,5,4,3
Exon/intron offsets:
0,2940,3177,5218,5383,5690,6952,8384,11587,14938,15769,15952,18859,22469,23014
Genomic length:
23074
Exon/intron sizes in nt:
175,53,159,89,57,43,189,159,83,147,59,42,88,72,60
Flanking exon/introns:
chr10:83439026-83441623|chr10:83464697-83476869
Splice length:
1475
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AATGAAATGTGCCTGGCCACTCAGCAGCTTTCCAGGCAGCTGCTGGCATATGAAAAACAGAATTTTGCACTGGGCAAAGGCGATGAAGAAGTAATTTCAACACTACATTATTTTTCCAAAGTGATGGATGAGCTCAATGGTCTCCACACAGAGCTGGCCAAGCAACTGGCAGACACTATGGTTCTCCCTGTTATACAGTTTCGAGAGAAGGATCTCACAGAAGTCAGCACTTTGAAGGATCTCTTTGGACTTGCCAGCAGCGAGCACGACCTGTCAATGGCAAAGTATAGCAGGCTCCCTAAGAAGAAGGAGAACGAGAAGGCGAAGACGGAAATTGTGAAAGAGGTGGCGGCTGCCCGGCGGAAACAGCACCTCTCATCCCTTCAGTACTACTGCGCACTCAACGCACTGCAGTACCGCAAGCGGGCGGCCATGATGGAACCCTTGATAGGCTTTGCCCACGGACAGATCAACTTTTTCAAGAGAGGAGCAGAGATGTTCTCCAAAAGTATGGACGGCTTCTTGTCATCCGTTAAAGACATGGTTCAGAGCATTCAGGTGGAACTGGAAGCTGAGGCAGACAAGATGCGGGTGTCCCAGCAAGAGTTGCTTTCGGTCAGTGAATCTGTTTACACTCCGGACATTGATGTGGCCACAGCGCAGATCAACAGGAACCTCATCCAGAAGACTGGTTACCTCAATCTCAGAAACAAGACCGGACTGGTCACCACCACGTGGGAGAGGCTGTACTTCTTCACCCAAGGCGGGAACCTCATGTGCCAGCCCCGGGGCGCTGTGGCTGGAGGCTTGATTCAGGACCTGGACAACTGCTCTGTGATGGCCGTGGATTGTGAAGACCGACGATACTGCTTCCAGATCTCCACGCCCAGTGGCAAACCGGGAATAATTCTCCAAGCAGAGAGCAGGAAGGAATATGAAGAGTGGATATGTGCAGTAAACAACATCTCCAGGCAGATCTACCTGACGGACAACCCAGAGGCAGTAGCCATCAAGTTGAATCAGACGGCTCTTCAGGCGGTGACGCCAATTACAAGCTTTGGGAAGAAACAAGAAAGCTCCTGCTCCAGTCAAAACATAAAAAATTCAGACATAGAAGATGACAATATTGTTCCCAAAGCAACAGCCAGCATTCCTGAAACAGAGGAACTGATTGCACCTGGGACACCCATTCAGTTTGATATTGTACTTCCGGCAACAGAATTCCTTGACCAGAACAGGGGTGGCAGGCGCACCAACCCTTTCGGTGAGACGGAGGATGGCTCATTCCCTGAAGCAGAAGACTCTCTTCTGCAGCAGATGTTCATCGTTCGGTTTTTGGGATCAATGGCAGTTAAGACAGACAGCACGGCTGAAGTGATTTATGAGGCAATGAGACAAGTACTGGCTGCTCGAGCTATTCACAACATCTTCCGCATGACCGAATCCCATCTCATGGTCACCAGTCAAACTCTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACAAGTACTGGCTGCTCGA
59.76
TTCTTCATCGCCTTTGCCCA
60.25
172
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAAGTACTGGCTGCTCGAG
59.76
TTCTTCATCGCCTTTGCCCA
60.25
171
PCR template sequence:
TGATTTATGAGGCAATGAGACAAGTACTGGCTGCTCGAGCTATTCACAACATCTTCCGCATGACCGAATCCCATCTCATGGTCACCAGTCAAACTCTGAGAATGAAATGTGCCTGGCCACTCAGCAGCTTTCCAGGCAGCTGCTGGCATATGAAAAACAGAATTTTGCACTGGGCAAAGGCGATGAAGAAGTAATTTCAA
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-1904(2), mmu-miR-20b-5p(1), mmu-miR-134-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-30e-5p(1), mmu-miR-106b-5p(1), mmu-miR-30a-5p(1), mmu-miR-130a-3p(1), mmu-miR-298-5p(1), mmu-miR-320-3p(1), mmu-miR-30d-5p(1), mmu-miR-363-3p(1), mmu-miR-301b-3p(1), mmu-miR-541-5p(1), mmu-miR-301a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCAAACTCTGAGAATGAAATGTGCC
siRNA sets
ATTTCATTCTCAGAGTTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAPPL2_1475_ORF_1
1.1594
0.311638694
0.99991706
1563
ORF sequence:
ATGTGCCTGGCCACTCAGCAGCTTTCCAGGCAGCTGCTGGCATATGAAAAACAGAATTTTGCACTGGGCAAAGGCGATGAAGAAGTAATTTCAACACTACATTATTTTTCCAAAGTGATGGATGAGCTCAATGGTCTCCACACAGAGCTGGCCAAGCAACTGGCAGACACTATGGTTCTCCCTGTTATACAGTTTCGAGAGAAGGATCTCACAGAAGTCAGCACTTTGAAGGATCTCTTTGGACTTGCCAGCAGCGAGCACGACCTGTCAATGGCAAAGTATAGCAGGCTCCCTAAGAAGAAGGAGAACGAGAAGGCGAAGACGGAAATTGTGAAAGAGGTGGCGGCTGCCCGGCGGAAACAGCACCTCTCATCCCTTCAGTACTACTGCGCACTCAACGCACTGCAGTACCGCAAGCGGGCGGCCATGATGGAACCCTTGATAGGCTTTGCCCACGGACAGATCAACTTTTTCAAGAGAGGAGCAGAGATGTTCTCCAAAAGTATGGACGGCTTCTTGTCATCCGTTAAAGACATGGTTCAGAGCATTCAGGTGGAACTGGAAGCTGAGGCAGACAAGATGCGGGTGTCCCAGCAAGAGTTGCTTTCGGTCAGTGAATCTGTTTACACTCCGGACATTGATGTGGCCACAGCGCAGATCAACAGGAACCTCATCCAGAAGACTGGTTACCTCAATCTCAGAAACAAGACCGGACTGGTCACCACCACGTGGGAGAGGCTGTACTTCTTCACCCAAGGCGGGAACCTCATGTGCCAGCCCCGGGGCGCTGTGGCTGGAGGCTTGATTCAGGACCTGGACAACTGCTCTGTGATGGCCGTGGATTGTGAAGACCGACGATACTGCTTCCAGATCTCCACGCCCAGTGGCAAACCGGGAATAATTCTCCAAGCAGAGAGCAGGAAGGAATATGAAGAGTGGATATGTGCAGTAAACAACATCTCCAGGCAGATCTACCTGACGGACAACCCAGAGGCAGTAGCCATCAAGTTGAATCAGACGGCTCTTCAGGCGGTGACGCCAATTACAAGCTTTGGGAAGAAACAAGAAAGCTCCTGCTCCAGTCAAAACATAAAAAATTCAGACATAGAAGATGACAATATTGTTCCCAAAGCAACAGCCAGCATTCCTGAAACAGAGGAACTGATTGCACCTGGGACACCCATTCAGTTTGATATTGTACTTCCGGCAACAGAATTCCTTGACCAGAACAGGGGTGGCAGGCGCACCAACCCTTTCGGTGAGACGGAGGATGGCTCATTCCCTGAAGCAGAAGACTCTCTTCTGCAGCAGATGTTCATCGTTCGGTTTTTGGGATCAATGGCAGTTAAGACAGACAGCACGGCTGAAGTGATTTATGAGGCAATGAGACAAGTACTGGCTGCTCGAGCTATTCACAACATCTTCCGCATGACCGAATCCCATCTCATGGTCACCAGTCAAACTCTGAGAATGAAATGTGCCTGGCCACTCAGCAGCTTTCCAGGCAGCTGCTGGCATATGAAAAACAGAATTTTGCACTGGGCAAAGGCGATGAAGAAGTAA
Peptide sequence:
MCLATQQLSRQLLAYEKQNFALGKGDEEVISTLHYFSKVMDELNGLHTELAKQLADTMVLPVIQFREKDLTEVSTLKDLFGLASSEHDLSMAKYSRLPKKKENEKAKTEIVKEVAAARRKQHLSSLQYYCALNALQYRKRAAMMEPLIGFAHGQINFFKRGAEMFSKSMDGFLSSVKDMVQSIQVELEAEADKMRVSQQELLSVSESVYTPDIDVATAQINRNLIQKTGYLNLRNKTGLVTTTWERLYFFTQGGNLMCQPRGAVAGGLIQDLDNCSVMAVDCEDRRYCFQISTPSGKPGIILQAESRKEYEEWICAVNNISRQIYLTDNPEAVAIKLNQTALQAVTPITSFGKKQESSCSSQNIKNSDIEDDNIVPKATASIPETEELIAPGTPIQFDIVLPATEFLDQNRGGRRTNPFGETEDGSFPEAEDSLLQQMFIVRFLGSMAVKTDSTAEVIYEAMRQVLAARAIHNIFRMTESHLMVTSQTLRMKCAWPLSSFPGSCWHMKNRILHWAKAMKK
IRESfinder result
IRESfinder score
0.436403811
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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