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mmu_circCdyl_1097
Basic information of circular RNA
PanCircBase ID:
mmu_circCdyl_1097
mm39_Chr. Position ID:
chr13|35999891|36042231|+
Gene name:
Cdyl
Transcript:
ENSMUST00000075220.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,6,7
Exon/intron offsets:
0,40754,42167
Genomic length:
42340
Exon/intron sizes in nt:
66,72,57,173
Flanking exon/introns:
chr13:35974158-35999891|chr13:36042231-36047181
Splice length:
1097
Other database IDs:
circAtlas: mmu-Cdyl_0002
circBase: hsa_circ_0007577, circAtlas: hsa-CDYL_0002, CIRCpedia: HSA_CIRCpedia_68393
Human Ortholog IDs:
Mature spliced Sequence:
GTGGAAAGTATCGTTGACAAAAGGAAAAACAAGAAAGGGAAGACAGAATATCTGGTGCGGTGGAAAGGCTATGACAGTGAGGATGACACGTGGGAGCCTGAGCAGCACCTGGTGAACTGTGAGGAATACATCCATGACTTCAACCGGCGCCACAACGAGAGGCAAAAGGAAGGTAGCCTGGCTCGTGCCAGCAGAGCCTCCCCCAGCAACGCCCGGAAGCAGATTTCCAGGTCCACCCACAGCACTCTCTCCAAGACCAACTCCAAAGCACTTGTGGTAGGCAAAGATCATGAGTCCAAAAGCAGCCAGCTGTTGGCTGCCAGCCAGAAGTTCAGGAAAAACCCAGCCCCATCTCTTGCAAACCGCAAGAACATGGACCTCGCCAAGTCAGGGATCAAAATTCTCGTGCCTAAGAGCCCCGTTAAGGGCAGGACCTCGGTTGATGGCTTTCAGGGGGAGAGCCCCGAGAAGCTGGACCCTGTGGATCAGGGTGCCGAGGACACTGTAGCCCCAGAGGTGACTGCAGAGAAGCCCACTGGGGCTTTGCTGGGCCCTGGTGCGGAGCGAGCCAGGATGGGGAGCAGGCCCCGAATACATCCACTAGTGCCTCAGGTTTCTGGCCCCGTGACTGCTGCCATGGCCACAGGCTTAGCTGTTAATGGAAAAGGTACATCTCCATTCATGGATGCGCTAGCAGCCAACGGAACAGTCACCATACAGACATCCGTAACAGGAGTGACAGCCGGGAAAAGGAAATTTATTGACGACAGAAGAGACCAACCTTTTGACAAGCGGTTGCGTTTCAGTGTGAGGCAGACAGAGAGTGCCTACAGATACAGAGATATTGTCGTCAGGAAGCAAGATGGCTTCACCCACATCTTGTTATCCACAAAATCGTCAGAGAATAACTCACTAAACCCAGAGGTGATGAAAGAAGTGCAGAGCGCCCTGAGCACAGCTGCAGCCGACGACAGCAAGCTGGTTCTGCTCAGCGCCGTGGGCAGCGTCTTCTGCTGTGGTCTGGACTTTATTTATTTTATTCGGCGCCTCACAGATGACCGAAAGAGAGAAAGCACTAAAATGGCAGACGCTATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTATTCGGCGCCTCACAGA
59.75
CTCCCACGTGTCATCCTCAC
60.11
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TATTCGGCGCCTCACAGATG
60.25
CTCCCACGTGTCATCCTCAC
60.11
156
PCR template sequence:
TGGGCAGCGTCTTCTGCTGTGGTCTGGACTTTATTTATTTTATTCGGCGCCTCACAGATGACCGAAAGAGAGAAAGCACTAAAATGGCAGACGCTATCAGGTGGAAAGTATCGTTGACAAAAGGAAAAACAAGAAAGGGAAGACAGAATATCTGGTGCGGTGGAAAGGCTATGACAGTGAGGATGACACGTGGGAGCCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-139-5p(1), mmu-miR-149-5p(1), mmu-miR-125a-5p(1), mmu-miR-342-3p(1), mmu-miR-1198-5p(1), mmu-miR-207(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGACGCTATCAGGTGGAAAGTATCG
siRNA sets
ATACTTTCCACCTGATAGC, GATACTTTCCACCTGATAG, TACTTTCCACCTGATAGCG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCDYL_1097_ORF_1
1.0899
0.229260356
0.976603756
840
ORF sequence:
ATGGACCTCGCCAAGTCAGGGATCAAAATTCTCGTGCCTAAGAGCCCCGTTAAGGGCAGGACCTCGGTTGATGGCTTTCAGGGGGAGAGCCCCGAGAAGCTGGACCCTGTGGATCAGGGTGCCGAGGACACTGTAGCCCCAGAGGTGACTGCAGAGAAGCCCACTGGGGCTTTGCTGGGCCCTGGTGCGGAGCGAGCCAGGATGGGGAGCAGGCCCCGAATACATCCACTAGTGCCTCAGGTTTCTGGCCCCGTGACTGCTGCCATGGCCACAGGCTTAGCTGTTAATGGAAAAGGTACATCTCCATTCATGGATGCGCTAGCAGCCAACGGAACAGTCACCATACAGACATCCGTAACAGGAGTGACAGCCGGGAAAAGGAAATTTATTGACGACAGAAGAGACCAACCTTTTGACAAGCGGTTGCGTTTCAGTGTGAGGCAGACAGAGAGTGCCTACAGATACAGAGATATTGTCGTCAGGAAGCAAGATGGCTTCACCCACATCTTGTTATCCACAAAATCGTCAGAGAATAACTCACTAAACCCAGAGGTGATGAAAGAAGTGCAGAGCGCCCTGAGCACAGCTGCAGCCGACGACAGCAAGCTGGTTCTGCTCAGCGCCGTGGGCAGCGTCTTCTGCTGTGGTCTGGACTTTATTTATTTTATTCGGCGCCTCACAGATGACCGAAAGAGAGAAAGCACTAAAATGGCAGACGCTATCAGGTGGAAAGTATCGTTGACAAAAGGAAAAACAAGAAAGGGAAGACAGAATATCTGGTGCGGTGGAAAGGCTATGACAGTGAGGATGACACGTGGGAGCCTGAGCAGCACCTGGTGA
Peptide sequence:
MDLAKSGIKILVPKSPVKGRTSVDGFQGESPEKLDPVDQGAEDTVAPEVTAEKPTGALLGPGAERARMGSRPRIHPLVPQVSGPVTAAMATGLAVNGKGTSPFMDALAANGTVTIQTSVTGVTAGKRKFIDDRRDQPFDKRLRFSVRQTESAYRYRDIVVRKQDGFTHILLSTKSSENNSLNPEVMKEVQSALSTAAADDSKLVLLSAVGSVFCCGLDFIYFIRRLTDDRKRESTKMADAIRWKVSLTKGKTRKGRQNIWCGGKAMTVRMTRGSLSSTW
IRESfinder result
IRESfinder score
0.294570867
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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