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mmu_ciDdx5_1259
Basic information of circular RNA
PanCircBase ID:
mmu_ciDdx5_1259
mm39_Chr. Position ID:
chr11|106673525|106674784|-
Gene name:
Ddx5
Transcript:
ENSMUST00000021062.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
11
Exon/intron offsets:
0
Genomic length:
1259
Exon/intron sizes in nt:
1259
Flanking exon/introns:
chr11:106673519-106674784
Splice length:
1259
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTAGTACAAACTCGAATTCATGGCTTGGTTTCCCAGAAGATCTCCATGTAGTTTTTTTTAAAGAAAGTTTATTGCTTTCTTTAACCTGCATTTTTTCTAAGTTTTTTTCACATAAAGGTGCAGTCTTTGTGGCAAGGCCTAGGCATGACAATCGGAGGACTCGAGGGGGATGGAGGACTAGTGATCGGCTGGCTGCTTCCAGTCGATTAGAGAGGTGAAAAGCTGAAAGTGTGCCAGTAATCTTCAAAGGGCAGAACATACCACCTCTGCCCCATAAACTGTTCTCTCCGGGGGAAAAAAATGGAAGTTACCTCACAGTTCACTGCCGTGGTATTTCATCTGTCCCATGCTTTGCATGATTGCCATGGTACAGCATTGTTTCAAACTGTTCACTGTGATCTGTGGGTCTTTGAGTTTCAGTGAGTTTGCTGAAATGTCGAAGAAATATTTCCAAACTTCAATGTTCAATGAAATTTTTGTTCAAGTTTGAAATGGAGAGAGCAGCTTTAAAAGCCTTTTACAAATTGGTGAGTACTGGCACATGAGACCTAGAGCAGGACCAACTTCTCACACATAGTCAGTGGGAAAAGAAAGTGCCTTGAAAGTTCCTCCCTCACCTACACAGTAGTCGTCATGTCGAGACCTGCCAGAGAGAGACACATTCTCAAGTGAATCCTGGCTTCTTGGAAGCGCTTGCCTAGACGAGACACAGTGCATTAAAACAACTTTTGGGGGACAGGTATGTTTTTCTTGCAGCTGCAGTTGTAAGGTCTTGGCAAGACAAGCAGTGTGGCCAGAGTTTTGAACTTCTGATGAGTGTAATGCAAAGGACCTTTACATTTTTGTTAAAAGGTCCTCAAAAATGAGCACATGAAGAGATTGCTGAGAAACTTTTAATTGGCCCTACTGCGCAGAAGCATTCAGATGTCACTTGATGATCTGTAAGGGGACTGTCAATTTGGGAATGTGCTAAGGAGAACACACATTCCCTTGATAGGCTGTCAGTGGGTGGGTGTTAAGACAGCTGACATGTGCAAATTTTTTTGTTGTTTTTTGGGTGTTTTGGTTTTTTTTTTTTCCTACCCTGCCCTTTTTTCCTACCTCAATGGTGTTCCTACAGGAAATGGATAACCATTTTAACTGTATTTTTTTCAGCCCGTACCTTCTTGGGAATACAATTGTCTAACTTTTTATTTTTGGTCTGGCTGTTGTGGTGTGCAAAACTCCGTACATTGCTATTTTGCCACACTGCAACACC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGGTCTGGCTGTTGTGGT
60.03
AAATGCAGGTTAAAGAAAGCAA
55.35
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGGTCTGGCTGTTGTGGT
60.03
AAAATGCAGGTTAAAGAAAGCA
55.35
158
PCR template sequence:
GTACCTTCTTGGGAATACAATTGTCTAACTTTTTATTTTTGGTCTGGCTGTTGTGGTGTGCAAAACTCCGTACATTGCTATTTTGCCACACTGCAACACCGTTAGTACAAACTCGAATTCATGGCTTGGTTTCCCAGAAGATCTCCATGTAGTTTTTTTTAAAGAAAGTTTATTGCTTTCTTTAACCTGCATTTTTTCTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-let-7e-5p(1), mmu-miR-34c-5p(1), mmu-miR-205-5p(1), mmu-miR-298-5p(1), mmu-miR-185-5p(1), mmu-miR-339-5p(1), mmu-miR-128-3p(1), mmu-miR-136-5p(1), mmu-miR-431-5p(1), mmu-miR-382-5p(1), mmu-miR-34b-5p(1), mmu-miR-466a-5p(1), mmu-miR-1198-5p(1), mmu-miR-466p-5p(1), mmu-miR-3087-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACACTGCAACACCGTTAGTACAAACT
siRNA sets
TTTGTACTAACGGTGTTGC, TTGTACTAACGGTGTTGCA, TACTAACGGTGTTGCAGTG
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
0.839005953
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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