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mmu_circPde10a_1730
Basic information of circular RNA
PanCircBase ID:
mmu_circPde10a_1730
mm39_Chr. Position ID:
chr17|9161703|9197825|+
Gene name:
Pde10a
Transcript:
ENSMUST00000115715.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
15
Exon/intron indexes:
7,8,9,10,11,12,13,14,15,16,17,18,19,20,21
Exon/intron offsets:
0,1498,2064,3924,6478,8625,10865,18988,20016,21693,24547,26656,31851,34264,36033
Genomic length:
36122
Exon/intron sizes in nt:
156,51,59,52,143,93,187,143,84,151,156,173,112,81,89
Flanking exon/introns:
chr17:9160113-9161703|chr17:9197825-9200364
Splice length:
1730
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GATGAGCGATTTCCTCGAGGTACTGGCCTGGAATCAGGAACCCGCATCCAGTCTGTTCTTTGCTTGCCCATTGTCACTGCCATTGGAGACTTGATTGGCATCCTTGAACTGTACAGGCACTGGGGCAAAGAGGCCTTCTGCCTCAGCCATCAGGAGGTTGCAACAGCCAATCTTGCTTGGGCTTCCGTAGCAATACACCAGGTGCAGGTGTGTAGAGGTCTCGCCAAACAGACCGAACTGAATGACTTCCTACTCGACGTATCAAAGACATACTTTGATAACATAGTTGCCATAGACTCTCTACTTGAACACATCATGATATATGCAAAAAATCTAGTGAACGCCGACCGCTGCGCGCTCTTCCAGGTGGACCACAAGAACAAGGAGCTGTACTCGGACCTGTTTGACATTGGGGAGGAGAAGGAGGGGAAGCCCATCTTCAAGAAGACCAAGGAGATCAGATTTTCCATTGAGAAAGGGATTGCTGGTCAAGTGGCAAGAACAGGCGAAGTCTTGAACATTCCCGATGCCTACGCGGACCCTCGCTTTAACAGGGAGGTGGACCTGTACACAGGCTACACCACGAGGAACATTCTGTGTATGCCCATAGTGAGCCGAGGCAGCGTGATTGGCGTGGTGCAGATGGTGAACAAGATCAGCGGTAGCGCCTTCTCCAAGACAGACGAGAACAACTTCAAGATGTTTGCTGTCTTCTGCGCACTGGCCTTGCACTGTGCTAACATGTACCACAGGATCCGCCACTCAGAATGCATCTACAGGGTTACCATGGAGAAGCTTTCCTACCACAGCATCTGCACCTCCGAGGAGTGGCAAGGCCTCATGCGCTTCAACCTACCAGCACGCATCTGCCGGGACATCGAGCTATTCCACTTTGACATTGGTCCTTTCGAGAACATGTGGCCTGGGATCTTTGTCTACATGATCCATCGGTCTTGTGGGACATCCTGTTTTGAACTTGAAAAATTGTGCCGTTTTATCATGTCTGTGAAGAAGAACTATCGGCGGGTTCCTTACCACAACTGGAAGCATGCAGTCACGGTGGCACACTGCATGTATGCCATACTTCAAAACAACAATGGCCTCTTCACAGACCTCGAGCGCAAAGGCCTGCTAATTGCGTGTCTGTGCCATGACCTGGACCACAGGGGCTTCAGTAACAGCTACCTGCAGAAGTTCGACCACCCCCTGGCGGCGCTGTACTCCACCTCCACCATGGAGCAACACCACTTCTCCCAGACGGTGTCCATCCTTCAGCTGGAAGGGCACAATATCTTCTCCACCCTGAGCTCCAGCGAGTACGAGCAGGTGCTGGAGATCATCCGCAAAGCCATCATCGCCACCGACCTCGCCCTATACTTTGGGAACAGGAAGCAGTTGGAGGAGATGTACCAGACAGGGTCGCTGAACCTCCACAACCAGTCCCATCGAGACCGTGTCATCGGCTTGATGATGACTGCCTGTGATCTTTGCTCTGTGACCAAACTATGGCCAGTTACAAAATTGACAGCGAATGATATATATGCAGAATTCTGGGCTGAGGGTGATGAGATGAAGAAGCTGGGCATACAGCCCATTCCTATGATGGACAGAGACAAGCGAGATGAAGTCCCTCAAGGGCAGCTCGGATTCTACAATGCTGTGGCCATTCCCTGCTATACCACCTTGACGCAGATCCTCCCACCCACAGAGCCTCTGCTGAAGGCCTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGCAGCTCGGATTCTACAA
59.82
AAGAACAGACTGGATGCGGG
60.04
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGCAGCTCGGATTCTACAA
59.82
ATGCGGGTTCCTGATTCCAG
60.11
142
PCR template sequence:
CTCAAGGGCAGCTCGGATTCTACAATGCTGTGGCCATTCCCTGCTATACCACCTTGACGCAGATCCTCCCACCCACAGAGCCTCTGCTGAAGGCCTGCAGGATGAGCGATTTCCTCGAGGTACTGGCCTGGAATCAGGAACCCGCATCCAGTCTGTTCTTTGCTTGCCCATTGTCACTGCCATTGGAGACTTGATTGGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-207(2), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-709(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-433-3p(1), mmu-miR-22-3p(1), mmu-miR-301b-3p(1), mmu-miR-382-5p(1), mmu-miR-183-5p(1), mmu-miR-425-5p(1), mmu-miR-34b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAAGGCCTGCAGGATGAGCGATTTC
siRNA sets
AAATCGCTCATCCTGCAGG, AATCGCTCATCCTGCAGGC, GAAATCGCTCATCCTGCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPDE10A_1730_ORF_1
1.3007
0.388410289
0.999930379
1509
ORF sequence:
ATGATATATGCAAAAAATCTAGTGAACGCCGACCGCTGCGCGCTCTTCCAGGTGGACCACAAGAACAAGGAGCTGTACTCGGACCTGTTTGACATTGGGGAGGAGAAGGAGGGGAAGCCCATCTTCAAGAAGACCAAGGAGATCAGATTTTCCATTGAGAAAGGGATTGCTGGTCAAGTGGCAAGAACAGGCGAAGTCTTGAACATTCCCGATGCCTACGCGGACCCTCGCTTTAACAGGGAGGTGGACCTGTACACAGGCTACACCACGAGGAACATTCTGTGTATGCCCATAGTGAGCCGAGGCAGCGTGATTGGCGTGGTGCAGATGGTGAACAAGATCAGCGGTAGCGCCTTCTCCAAGACAGACGAGAACAACTTCAAGATGTTTGCTGTCTTCTGCGCACTGGCCTTGCACTGTGCTAACATGTACCACAGGATCCGCCACTCAGAATGCATCTACAGGGTTACCATGGAGAAGCTTTCCTACCACAGCATCTGCACCTCCGAGGAGTGGCAAGGCCTCATGCGCTTCAACCTACCAGCACGCATCTGCCGGGACATCGAGCTATTCCACTTTGACATTGGTCCTTTCGAGAACATGTGGCCTGGGATCTTTGTCTACATGATCCATCGGTCTTGTGGGACATCCTGTTTTGAACTTGAAAAATTGTGCCGTTTTATCATGTCTGTGAAGAAGAACTATCGGCGGGTTCCTTACCACAACTGGAAGCATGCAGTCACGGTGGCACACTGCATGTATGCCATACTTCAAAACAACAATGGCCTCTTCACAGACCTCGAGCGCAAAGGCCTGCTAATTGCGTGTCTGTGCCATGACCTGGACCACAGGGGCTTCAGTAACAGCTACCTGCAGAAGTTCGACCACCCCCTGGCGGCGCTGTACTCCACCTCCACCATGGAGCAACACCACTTCTCCCAGACGGTGTCCATCCTTCAGCTGGAAGGGCACAATATCTTCTCCACCCTGAGCTCCAGCGAGTACGAGCAGGTGCTGGAGATCATCCGCAAAGCCATCATCGCCACCGACCTCGCCCTATACTTTGGGAACAGGAAGCAGTTGGAGGAGATGTACCAGACAGGGTCGCTGAACCTCCACAACCAGTCCCATCGAGACCGTGTCATCGGCTTGATGATGACTGCCTGTGATCTTTGCTCTGTGACCAAACTATGGCCAGTTACAAAATTGACAGCGAATGATATATATGCAGAATTCTGGGCTGAGGGTGATGAGATGAAGAAGCTGGGCATACAGCCCATTCCTATGATGGACAGAGACAAGCGAGATGAAGTCCCTCAAGGGCAGCTCGGATTCTACAATGCTGTGGCCATTCCCTGCTATACCACCTTGACGCAGATCCTCCCACCCACAGAGCCTCTGCTGAAGGCCTGCAGGATGAGCGATTTCCTCGAGGTACTGGCCTGGAATCAGGAACCCGCATCCAGTCTGTTCTTTGCTTGCCCATTGTCACTGCCATTGGAGACTTGA
Peptide sequence:
MIYAKNLVNADRCALFQVDHKNKELYSDLFDIGEEKEGKPIFKKTKEIRFSIEKGIAGQVARTGEVLNIPDAYADPRFNREVDLYTGYTTRNILCMPIVSRGSVIGVVQMVNKISGSAFSKTDENNFKMFAVFCALALHCANMYHRIRHSECIYRVTMEKLSYHSICTSEEWQGLMRFNLPARICRDIELFHFDIGPFENMWPGIFVYMIHRSCGTSCFELEKLCRFIMSVKKNYRRVPYHNWKHAVTVAHCMYAILQNNNGLFTDLERKGLLIACLCHDLDHRGFSNSYLQKFDHPLAALYSTSTMEQHHFSQTVSILQLEGHNIFSTLSSSEYEQVLEIIRKAIIATDLALYFGNRKQLEEMYQTGSLNLHNQSHRDRVIGLMMTACDLCSVTKLWPVTKLTANDIYAEFWAEGDEMKKLGIQPIPMMDRDKRDEVPQGQLGFYNAVAIPCYTTLTQILPPTEPLLKACRMSDFLEVLAWNQEPASSLFFACPLSLPLET
IRESfinder result
IRESfinder score
0.468317632
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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