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mmu_circPde10a_882
Basic information of circular RNA
PanCircBase ID:
mmu_circPde10a_882
mm39_Chr. Position ID:
chr17|9159972|9172755|+
Gene name:
Pde10a
Transcript:
ENSMUST00000115715.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
6,7,8,9,10,11,12,13
Exon/intron offsets:
0,1731,3229,3795,5655,8209,10356,12596
Genomic length:
12783
Exon/intron sizes in nt:
141,156,51,59,52,143,93,187
Flanking exon/introns:
chr17:9149391-9159972|chr17:9172755-9180691
Splice length:
882
Other database IDs:
circBase: mmu_circ_0007104, CIRCpedia: MMU_CIRCpedia_33432, circAtlas: mmu-Pde10a_0007
circBase: hsa_circ_0078636, circAtlas: hsa-PDE10A_0048, CIRCpedia: HSA_CIRCpedia_146937
Human Ortholog IDs:
Mature spliced Sequence:
AGCCTGTGTGTGTTCATACCACCCGGGATGAAGGAAGGCCAACCCCGGCTCATCCCTGCAGGGCCCATCACCCAGGGTACCACCATCTCTGCCTACGTGGCCAAGTCTAGGAAGACGTTGTTGGTAGAGGATATCCTTGGGGATGAGCGATTTCCTCGAGGTACTGGCCTGGAATCAGGAACCCGCATCCAGTCTGTTCTTTGCTTGCCCATTGTCACTGCCATTGGAGACTTGATTGGCATCCTTGAACTGTACAGGCACTGGGGCAAAGAGGCCTTCTGCCTCAGCCATCAGGAGGTTGCAACAGCCAATCTTGCTTGGGCTTCCGTAGCAATACACCAGGTGCAGGTGTGTAGAGGTCTCGCCAAACAGACCGAACTGAATGACTTCCTACTCGACGTATCAAAGACATACTTTGATAACATAGTTGCCATAGACTCTCTACTTGAACACATCATGATATATGCAAAAAATCTAGTGAACGCCGACCGCTGCGCGCTCTTCCAGGTGGACCACAAGAACAAGGAGCTGTACTCGGACCTGTTTGACATTGGGGAGGAGAAGGAGGGGAAGCCCATCTTCAAGAAGACCAAGGAGATCAGATTTTCCATTGAGAAAGGGATTGCTGGTCAAGTGGCAAGAACAGGCGAAGTCTTGAACATTCCCGATGCCTACGCGGACCCTCGCTTTAACAGGGAGGTGGACCTGTACACAGGCTACACCACGAGGAACATTCTGTGTATGCCCATAGTGAGCCGAGGCAGCGTGATTGGCGTGGTGCAGATGGTGAACAAGATCAGCGGTAGCGCCTTCTCCAAGACAGACGAGAACAACTTCAAGATGTTTGCTGTCTTCTGCGCACTGGCCTTGCACTGTGCTAAC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGTTTGCTGTCTTCTGCGC
59.76
CACGTAGGCAGAGATGGTGG
60.18
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGTTTGCTGTCTTCTGCGC
59.76
CCACGTAGGCAGAGATGGTG
60.18
142
PCR template sequence:
GATGGTGAACAAGATCAGCGGTAGCGCCTTCTCCAAGACAGACGAGAACAACTTCAAGATGTTTGCTGTCTTCTGCGCACTGGCCTTGCACTGTGCTAACAGCCTGTGTGTGTTCATACCACCCGGGATGAAGGAAGGCCAACCCCGGCTCATCCCTGCAGGGCCCATCACCCAGGGTACCACCATCTCTGCCTACGTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-205-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-709(1), mmu-miR-433-3p(1), mmu-miR-301b-3p(1), mmu-miR-382-5p(1), mmu-miR-34b-5p(1), mmu-miR-384-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GCACTGTGCTAACAGCCTGTGTGTGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPDE10A_882_ORF_1
1.3009
0.36722233
0.999985925
1737
ORF sequence:
ATGAAGGAAGGCCAACCCCGGCTCATCCCTGCAGGGCCCATCACCCAGGGTACCACCATCTCTGCCTACGTGGCCAAGTCTAGGAAGACGTTGTTGGTAGAGGATATCCTTGGGGATGAGCGATTTCCTCGAGGTACTGGCCTGGAATCAGGAACCCGCATCCAGTCTGTTCTTTGCTTGCCCATTGTCACTGCCATTGGAGACTTGATTGGCATCCTTGAACTGTACAGGCACTGGGGCAAAGAGGCCTTCTGCCTCAGCCATCAGGAGGTTGCAACAGCCAATCTTGCTTGGGCTTCCGTAGCAATACACCAGGTGCAGGTGTGTAGAGGTCTCGCCAAACAGACCGAACTGAATGACTTCCTACTCGACGTATCAAAGACATACTTTGATAACATAGTTGCCATAGACTCTCTACTTGAACACATCATGATATATGCAAAAAATCTAGTGAACGCCGACCGCTGCGCGCTCTTCCAGGTGGACCACAAGAACAAGGAGCTGTACTCGGACCTGTTTGACATTGGGGAGGAGAAGGAGGGGAAGCCCATCTTCAAGAAGACCAAGGAGATCAGATTTTCCATTGAGAAAGGGATTGCTGGTCAAGTGGCAAGAACAGGCGAAGTCTTGAACATTCCCGATGCCTACGCGGACCCTCGCTTTAACAGGGAGGTGGACCTGTACACAGGCTACACCACGAGGAACATTCTGTGTATGCCCATAGTGAGCCGAGGCAGCGTGATTGGCGTGGTGCAGATGGTGAACAAGATCAGCGGTAGCGCCTTCTCCAAGACAGACGAGAACAACTTCAAGATGTTTGCTGTCTTCTGCGCACTGGCCTTGCACTGTGCTAACAGCCTGTGTGTGTTCATACCACCCGGGATGAAGGAAGGCCAACCCCGGCTCATCCCTGCAGGGCCCATCACCCAGGGTACCACCATCTCTGCCTACGTGGCCAAGTCTAGGAAGACGTTGTTGGTAGAGGATATCCTTGGGGATGAGCGATTTCCTCGAGGTACTGGCCTGGAATCAGGAACCCGCATCCAGTCTGTTCTTTGCTTGCCCATTGTCACTGCCATTGGAGACTTGATTGGCATCCTTGAACTGTACAGGCACTGGGGCAAAGAGGCCTTCTGCCTCAGCCATCAGGAGGTTGCAACAGCCAATCTTGCTTGGGCTTCCGTAGCAATACACCAGGTGCAGGTGTGTAGAGGTCTCGCCAAACAGACCGAACTGAATGACTTCCTACTCGACGTATCAAAGACATACTTTGATAACATAGTTGCCATAGACTCTCTACTTGAACACATCATGATATATGCAAAAAATCTAGTGAACGCCGACCGCTGCGCGCTCTTCCAGGTGGACCACAAGAACAAGGAGCTGTACTCGGACCTGTTTGACATTGGGGAGGAGAAGGAGGGGAAGCCCATCTTCAAGAAGACCAAGGAGATCAGATTTTCCATTGAGAAAGGGATTGCTGGTCAAGTGGCAAGAACAGGCGAAGTCTTGAACATTCCCGATGCCTACGCGGACCCTCGCTTTAACAGGGAGGTGGACCTGTACACAGGCTACACCACGAGGAACATTCTGTGTATGCCCATAGTGAGCCGAGGCAGCGTGATTGGCGTGGTGCAGATGGTGAACAAGATCAGCGGTAGCGCCTTCTCCAAGACAGACGAGAACAACTTCAAGATGTTTGCTGTCTTCTGCGCACTGGCCTTGCACTGTGCTAAC
Peptide sequence:
MKEGQPRLIPAGPITQGTTISAYVAKSRKTLLVEDILGDERFPRGTGLESGTRIQSVLCLPIVTAIGDLIGILELYRHWGKEAFCLSHQEVATANLAWASVAIHQVQVCRGLAKQTELNDFLLDVSKTYFDNIVAIDSLLEHIMIYAKNLVNADRCALFQVDHKNKELYSDLFDIGEEKEGKPIFKKTKEIRFSIEKGIAGQVARTGEVLNIPDAYADPRFNREVDLYTGYTTRNILCMPIVSRGSVIGVVQMVNKISGSAFSKTDENNFKMFAVFCALALHCANSLCVFIPPGMKEGQPRLIPAGPITQGTTISAYVAKSRKTLLVEDILGDERFPRGTGLESGTRIQSVLCLPIVTAIGDLIGILELYRHWGKEAFCLSHQEVATANLAWASVAIHQVQVCRGLAKQTELNDFLLDVSKTYFDNIVAIDSLLEHIMIYAKNLVNADRCALFQVDHKNKELYSDLFDIGEEKEGKPIFKKTKEIRFSIEKGIAGQVARTGEVLNIPDAYADPRFNREVDLYTGYTTRNILCMPIVSRGSVIGVVQMVNKISGSAFSKTDENNFKMFAVFCALALHCAN
IRESfinder result
IRESfinder score
0.475443617
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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