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mmu_ciPsmd6_1856
Basic information of circular RNA
PanCircBase ID:
mmu_ciPsmd6_1856
mm39_Chr. Position ID:
chr14|8353615|8355471|+
Gene name:
Psmd6
Transcript:
ENSMUST00000022256.5
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
1856
Exon/intron sizes in nt:
1856
Flanking exon/introns:
chr14:8353615-8355471
Splice length:
1856
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGGATCTGACTTCATCTGGTCCTGTGGGTACATAGCACAGCAGGGTATAAGAGAGGCTGCAGGTCTTAATACTTAAGTTCTGCCTATTGTGCTTAGGTAAGGCCAGCAAACTTGGTGTATTTTATAAATTCCCAAATGTGAGAATGATGTGTGCTTTTGATGCATATGTGAAAGTCTTTCAGGTTGCTTCTCTTCTATCATGTGAGTCCTGGAGATTGAACTCAGGTCATCAGGCATGGCTCTGGCATCTGATGAAGGGTTAACACTAGAACTAGGAATCTTGGCTGCACAGCCATCCAGATATGTTACCCAAAAGACAACAGAGACAAGCACAGGCAACTGAAAGCACTCAGTCACTTGAGAGGTCTCACAGAAGGGAAGACCAAAGAAATCATAAATATGATACAATGGAGCAAAGCAAACAAAACAGAAAAAGGAGGGATGTCCAGTGACCATGAGACAGGGTGGAAGGGAGCAGGCTGCACTCTCGCCACAGTAAAGTTCATGTGACCAATAAGATTTCTTTTTCTTCTCAAACCACCAAGTTTTATAAAAATGTGGGGATAGGTTCTTTCAAATACTAGAAACTGGTACAATGTTCCTAGGGACAGCATGGTCAAGGTATACTGATACTTAGGCAAAGTTCAATGTCTTAGACTATCTACGTGTTCAAAACAGGATAACTTTTACAAGGTTGAGCTGAAATCTTAGAAACTTTCTATCAGTAGATAATAAATTCAGGGACACAGTACACTCAGCATCCCTTCAACAACTGGAAGCTGTAAGGAACTTCACTTGATTGAAGCCTATGTACTTAGTCCATGAGAGCAGTACAACCACTTGATTGAAACAGCCCACCATTGGTATAGTGACATGAAAAGCTGCTCCATCCTACATTGTGACAAGAAAAAGCAAGTTGGAGAGCAGAATATGAAATAGAACTACAATATGCCCAGAAACTTGGTAACTGCTGCCTGAAAGGAAATACTTGAAACACCATGTTAGTGAAGACTGTGTACTGGTTTATAGGACTCTGTTAGAAAGTTGTCTAGTGTGTACCTAATTTTTTTAGTTGTTAAAGTATTAAGTACCAGGAAGGATTGTGTAAATAAATGTGTGTGGTTTGGGAGAGGGAGATACAATGCTTTTCACTTGCTGTTATACTCAGTTTCTAGAAACAAGCACACACTATGTGGCAGAGGATTCTATTCTTCCCCTTGTTCAGCTTGTCTCTATCCCGTTAGACTTTGCAGTCTTTCTATTTCTGAACTCAGTTATAGTCATCATGCCTTGGGACTGTGCTTACTAACATTATTGTCTAATAATGTTCTCTGCCTAGGCAGTTTCTCAGAATTCTTTCCTGCCCACTGCCCCAGGAAGGGCTTCCCAAAAATGCTGCCTATGCCATTTTCTTCATAGAACTTATTACTTGCACCTTGGTTTCATAACCAGAGCAGAAGCATATAGTATCTAGTAAGATAGTTTATATTCCTGTAGATTGCTCATTAATATCCTATATACACTTTACTCTTCAATTTTGTTGCTACATCAGCCTTGTTAACAACTTGTCCTTATTCTTTCTACGTTTTTACAAGTTTCATCACTCTTTATTGCTTATTTTGTGACTTTGTAAAAATGTGTCTTTTTTTTGCTTTTGTTTTTCATTTATCACACCCTCCTGCTTGGTATAATTGTAAATAATAGAACTTTGCTTCATTATATAAAATGTGCCCAGTTATGCTGTGATCTGGGTGACAGTTCACTGTCGACCTGTCTTTGTTGGATGCTGTGAGAGGACAGCAATATGTAGAGATCAGAGCTTCTGGGTTTATATGTCATCTTATTTATTGTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGTTCACTGTCGACCTGTCT
59.66
CCCTGCTGTGCTATGTACCC
60.18
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTTCACTGTCGACCTGTCT
58.31
CCCTGCTGTGCTATGTACCC
60.18
145
PCR template sequence:
GACAGTTCACTGTCGACCTGTCTTTGTTGGATGCTGTGAGAGGACAGCAATATGTAGAGATCAGAGCTTCTGGGTTTATATGTCATCTTATTTATTGTAGGTAAGGATCTGACTTCATCTGGTCCTGTGGGTACATAGCACAGCAGGGTATAAGAGAGGCTGCAGGTCTTAATACTTAAGTTCTGCCTATTGTGCTTAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
Interacting miRNAs (#binding sites)
mmu-miR-218-5p(2), mmu-miR-9-5p(1), mmu-miR-140-5p(1), mmu-miR-150-5p(1), mmu-miR-221-3p(1), mmu-miR-205-5p(1), mmu-miR-18a-5p(1), mmu-miR-23a-3p(1), mmu-miR-136-5p(1), mmu-miR-26b-5p(1), mmu-miR-382-5p(1), mmu-miR-370-3p(1), mmu-miR-499-5p(1), mmu-miR-384-3p(1), mmu-miR-5101(1), mmu-miR-3065-5p(1), mmu-miR-670-5p(1), mmu-miR-490-3p(1), mmu-miR-3061-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTATTTATTGTAGGTAAGGATCTGAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.839619834
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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