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mmu_ciHnrnpm_856
Basic information of circular RNA
PanCircBase ID:
mmu_ciHnrnpm_856
mm39_Chr. Position ID:
chr17|33883609|33884465|-
Gene name:
Hnrnpm
Transcript:
ENSMUST00000148178.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
856
Exon/intron sizes in nt:
856
Flanking exon/introns:
chr17:33883608-33884465
Splice length:
856
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATCCTTTTGTGGGAATTCAGCTCATGGCAAACAGTGCCCCCAGCACTGTTAGGCAATAGCATACCTAGGTATATTACGACAACAAGGTAGAAGTAACTATTTTCTCTGTGACTAGAGTAAATAGATTACTATGGAATCTGAAATTTTTCTGGAGTAGAACACAGATGGATAAAAGGTGTGGTTGTATCATAGACACATGCTATGAATGGTCTTTTCTTTTCAGAGGAGTTTAGGAAATAAACCATTTATGAGAACTGAGGGTTTTTCTTTTTTTCTTTTTCTTTTTGGTTTTTTTTTTCCAGACAGGGTTTCTGTGTGTAGCACTGGCTGTCCTAGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATTCGCCTGTCTCTGCCTCCCAAGTGCTGGGATCAAAGGCGTGCGCCACCACGCCCGGTAGAACTGAGGCTTTTATTTCTTTATAATATATCCTTATGGACTCTGTCTGTTGTAGAGAGACGTTGTTTGAAGAGATCCCTTTCCTTGCTGTAGGCTTGCCCTCGGGTTACATCTTTTTAATTACAGTGAGTATGTCACACATAACTACAGAAATTAAACTCAGGAGACTATTACTGGTTGCTTTACCCAGAAAACATGATATTTCAGAAATACTAAAGACTCTTGGTCTGTTGAACACATAGATAACTGCTTTAACTAATTACCAGAAGCATTTTGCAGTGTAAAGTCATTACTAAAACTTCATACCTAGAGAGTTGAAATTTCTTATGAGTTCACTGGTAGCTATGGAGGTGTTACCTTTTTAACATTTTATATGGTATGCTTTAACAGTTGTTAGAAATAGCCTTAATTGTAATACCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACTGGTAGCTATGGAGGTGT
58.89
ATTGCCTAACAGTGCTGGGG
60.32
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCACTGGTAGCTATGGAGGTGT
60.29
ATTGCCTAACAGTGCTGGGG
60.32
147
PCR template sequence:
TTTCTTATGAGTTCACTGGTAGCTATGGAGGTGTTACCTTTTTAACATTTTATATGGTATGCTTTAACAGTTGTTAGAAATAGCCTTAATTGTAATACCAGTATCCTTTTGTGGGAATTCAGCTCATGGCAAACAGTGCCCCCAGCACTGTTAGGCAATAGCATACCTAGGTATATTACGACAACAAGGTAGAAGTAACT
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-141-3p(1), mmu-miR-709(1), mmu-miR-340-5p(1), mmu-miR-690(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AATTGTAATACCAGTATCCTTTTGTG
siRNA sets
AAAAGGATACTGGTATTAC, AAAGGATACTGGTATTACA, AAGGATACTGGTATTACAA
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
0.925882486
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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