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mmu_ciHarbi1_822
Basic information of circular RNA
PanCircBase ID:
mmu_ciHarbi1_822
mm39_Chr. Position ID:
chr2|91541596|91542418|+
Gene name:
Harbi1
Transcript:
ENSMUST00000142692.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
1
Exon/intron offsets:
0
Genomic length:
822
Exon/intron sizes in nt:
822
Flanking exon/introns:
chr2:91541596-91542424
Splice length:
822
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTACAGTGAGCCCATTCCTGGCTGGGGCATCTTTACTTACACGGCTTTTAAAGGAATAAACTTTTTAAATACATTTATGTTTTGGAGGCGGGCGTGATGTGGCAAGGGTGTTGGACGATTCTTTCTTTCCACCATATGGATCTCAGATAGCCAACTAATTTATTTCACCAGGCTTCACAGGCAAACCCTGTGCCCTCGGAGCCATCTTTGTCCCTTAATACTGTTTTGAAAGCGGGTTGAAAAGTGGCCTCGGTGTTCCAGACCTACCTGGTTCACTTAGCTTTTTCCTCCTTTCCTTCCTTTTATACTCTTCCTTCCTTTCTAGCCTAAAGCTTCGGGATTTGGGTCTCTTGAGATGAAGGGAAAGCCTGTTACAGCAGACAGTGTAGGTCCCCAGGCAGGGCCACAGACTGTCTTTCTTCCTTTCTCCCCCCCCCCCACCCCCCCTTTGTTCTACATCTCTAGTTGGACTGGTTTGAGCACTCCCTCATCTGTGGAGCCATAGGGCTTTGCAAAACAAACCTCTGAGTAACCCTTAAGGTGTTTTCAACTTGTCAGCTGTCTCCTGGTTGCCACAGACCTCTTTTACCTTGTAAATTGTTTGTTCTCATGTGTTGTTCTCAGTTGAAATGCCAGGCAGTAGATGAGCCACTGGGATTGAACTCTTATTGTCTGCAAATTAGATCAAGTTTGTCATACAATAGTGAGTCAGTGGAGATAAATCTAGAGTTAACAAGTGAATGGCTGAAAAAGGTGTAGGTTTTGAGTCATTTGGTATGGTTTGGATCACGTTTCTAATTATTTTTTTCTTTTAATTAACAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCTGAAAAAGGTGTAGGT
56.96
GCCCGCCTCCAAAACATAAA
59.11
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTATGGTTTGGATCACGT
56.84
GCCCGCCTCCAAAACATAAA
59.11
143
PCR template sequence:
TCTAGAGTTAACAAGTGAATGGCTGAAAAAGGTGTAGGTTTTGAGTCATTTGGTATGGTTTGGATCACGTTTCTAATTATTTTTTTCTTTTAATTAACATGTACAGTGAGCCCATTCCTGGCTGGGGCATCTTTACTTACACGGCTTTTAAAGGAATAAACTTTTTAAATACATTTATGTTTTGGAGGCGGGCGTGATGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-205-5p(1), mmu-miR-328-3p(1), mmu-miR-495-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTTAATTAACATGTACAGTGAGCCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIHARBI1_822_ORF_5
0.6518
-0.279481809
0.011012056
99
ORF sequence:
ATGTACAGTGAGCCCATTCCTGGCTGGGGCATCTTTACTTACACGGCTTTTAAAGGAATAAACTTTTTAAATACATTTATGTTTTGGAGGCGGGCGTGA
Peptide sequence:
MYSEPIPGWGIFTYTAFKGINFLNTFMFWRRA
IRESfinder result
IRESfinder score
0.897731408
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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