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mmu_ciMed13_1625
Basic information of circular RNA
PanCircBase ID:
mmu_ciMed13_1625
mm39_Chr. Position ID:
chr11|86220188|86221813|-
Gene name:
Med13
Transcript:
ENSMUST00000043624.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
1625
Exon/intron sizes in nt:
1625
Flanking exon/introns:
chr11:86220188-86221813
Splice length:
1625
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGGATTCTGATACTAGTCTGAAGGGGGTCCTGTGTGTTTAGATTTTACTAAATAACAAACCGCTCTCTTGGCATTCAGTACCAAACAGTTATTTCTTGCTTATTTCCTCTGCACATCACACAAGGGCTACAGCTTGGCTGTGATGACTGTCTGCATGTTCTTCCTGTACAGTCCAGGTTAAGAAGCACCTAGGGTCTGGGACACAGTGTTCCTAGGAAAACAAGGGAATGACAGGGATCACGCCTGATGATGAAAGTGCATTAAAGTTTCTGCTGAGATGAAAATGAGCTAAAGGAATGGTACATTTGCTCCCAGTGAATTAGACAAGACTGGTTACCTGTCCAAGCCAGAGTTACTGGGACAGAGGAACATGCTTTGTTGTCCACATGTTATAGAAGGGAACAAGATTAATTGTGAAACAGTTATTATTTGGGGGCTAGAAAAATTGACAGCCTGTATTATGTATAGTGCTTGAATATTTAATAAAACTTTCAGTAACAGAAAATATTCCTAAATAACTTCTGGCATTGGTGTGTTCTCCATAAGTCAGTTCTTTCCAGATTAGCTTCAGTTCATATGTCATGTTCCAGGTGCAGCCAGGAAGGAGATCTGCTTCTGAGTATATTAATTACATAGCAGAGACAAGAAGAAAAGAGGCTGCACCGATCCCTCTGAGCATAATTCACTTGTTAAGATGTGGCATACAGTCAAGCCTGATAGTGTATAAAGACATGGAAGGCATGGACAATGTATAATTCAGCAGATAATTGGAATTAGTATCTGTGATACTGTAGTTAAAGCAATCTAATACAAATGTCTCATGTAAGGGTTACCCTATGGGAGTTTTGGAGTTTTTATTAGGGTTTGCCCTGTAACCCAGGTTGGCCTTGGACTCAACACTCAACCTGTTCAACCTCCTGAGTCCTGGGGTTGCAGATGTATATCACTATGCATGGCTTTTTTAAAAGTTGAAACTGTTCTCATTCATTTTCAGTAAATTCATGATCTATTATTGGAATAGTTATGACAGAAACAGTACAGATGATTACTAGACTTTAAAGACAAGATGGTCCATGATCTTAAGTGTCCACATTACCTTTATTATGTTTATAAATTAAAATTTATAATACAGTGCACATTGATCAACTGTACATACATAGATTTTTAAAACTCATCATTACAGTAGAAAATCTATAGCTTATTGAATTAAAGTACTTAATATACAAGTCTGAGGATGTGATTTTTGGATTTCAAAATCTGCATGGAACCCAAATACAGTATTGTATTTATCTAATTCCAGCACTCCTATGGCAGGATGGGAGGCTGAGATAGGAGTAGACCTGCAAGCTCACAGACTAGTTAGTTAGCATGGCATATACAGTAGCCTGGAGAACTTGTCCTAAACTAGGTGGAAAGTGTACACTGACACCTGAGTTTATCCTCTGCACCATAGCACGTGTATAGCTATGCTCAGAGACGGATACAATGATATTTTTATTTACATAAATATAACATTAGGGTAATTTTTACTGCAGTGCTTTTTAATGAAAGTAATTCAATTTCTGCCACAGTGGTAGCTGATTTGTGTTTTTTTCCCTTGTTTTTGTCCATTTTGTTTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCCACAGTGGTAGCTGAT
59.75
TGAATGCCAAGAGAGCGGTT
59.96
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCCACAGTGGTAGCTGAT
59.75
CTGAATGCCAAGAGAGCGGT
60.39
141
PCR template sequence:
ATTTTTACTGCAGTGCTTTTTAATGAAAGTAATTCAATTTCTGCCACAGTGGTAGCTGATTTGTGTTTTTTTCCCTTGTTTTTGTCCATTTTGTTTTCAGGTATGGATTCTGATACTAGTCTGAAGGGGGTCCTGTGTGTTTAGATTTTACTAAATAACAAACCGCTCTCTTGGCATTCAGTACCAAACAGTTATTTCTT
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-101b-3p(1), mmu-miR-139-5p(1), mmu-miR-153-3p(1), mmu-miR-297a-5p(1), mmu-miR-384-3p(1), mmu-miR-673-5p(1), mmu-miR-369-3p(1), mmu-miR-532-5p(1), mmu-miR-669d-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
ATTTTGTTTTCAGGTATGGATTCTGA
siRNA sets
AATCCATACCTGAAAACAA
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
0.832347698
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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