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mmu_ciHdlbp_771
Basic information of circular RNA
PanCircBase ID:
mmu_ciHdlbp_771
mm39_Chr. Position ID:
chr1|93348034|93348805|-
Gene name:
Hdlbp
Transcript:
ENSMUST00000170883.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
16
Exon/intron offsets:
0
Genomic length:
771
Exon/intron sizes in nt:
771
Flanking exon/introns:
chr1:93348009-93348805
Splice length:
771
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAATGGGGGATATTTCTTGATGGGCTCCTTATCCAACTCTTGTTTGTAAAGTTTCTATCAGAGTCTTCCAGGCTCATTTTTTAAAAAAGACATGAGCTTTAAGCCTGGGGAGTGGTGTCAAGTGTTCGTTAATTTTATACTCTGGGGCTGGAGAGAGATGGCTCAGTAGATAAAGTGCTTGCTAAGCAAACTTAAGGACATGATTTCAGAACCTCAGAAATCACATGAAGCCAGCTTCCTCACATCTGTAATTCAGTATGTGTGCATACATCGAGATGGGAACTGGAGACAAGAGAGTCCCCAGGGTCTGAAGAACAGCTCCCCTAGCATATGCAGTGGATAAAAAAGAGGCCCTGTCTCAAACAAGGTGGCAGATGAGAATGAACACCCCAGACTGTCCTCTGCCTTCCACGTGTGTCTACACTCACGTCATACACAAAAGGATTTGTAAAAGGAAAGCAAACTATAGTTCAAGACCTACCGGATTTTGTTTAACTTTCTAAAAATTAACACACAGTAAGCTATACATGTTTACATTGTACAGTTTGATAATCTTGATATTTTTACAGTCCTGGAATCATCCTGTTGTGTGACTTTTCCCATTGCATGGTCTAAAATCCTGGCTTTCCTAGTGTGCGTTGTAGCCTTACTACTGACCTCTACCCAGCACATCTTAGAGTGTCTCCCCCACTCCTATTTCTTCAAACTCTTTCAAACTGTAATTACATTCTTTCCTTTAGGCCTTTCTTACCACATAACAGTGTAATTTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGTCTCCCCCACTCCTAT
58.98
TGAGCCTGGAAGACTCTGAT
57.76
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGTCTCCCCCACTCCTAT
58.98
ATGAGCCTGGAAGACTCTGA
57.76
171
PCR template sequence:
ATCTTAGAGTGTCTCCCCCACTCCTATTTCTTCAAACTCTTTCAAACTGTAATTACATTCTTTCCTTTAGGCCTTTCTTACCACATAACAGTGTAATTTCGTAATGGGGGATATTTCTTGATGGGCTCCTTATCCAACTCTTGTTTGTAAAGTTTCTATCAGAGTCTTCCAGGCTCATTTTTTAAAAAAGACATGAGCTT
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-7b-5p(1), mmu-miR-298-5p(1), mmu-miR-7a-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-297a-5p(1), mmu-miR-690(1), mmu-miR-29b-2-5p(1), mmu-miR-377-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAGTGTAATTTCGTAATGGGGGATA
siRNA sets
TATCCCCCATTACGAAATT, CATTACGAAATTACACTGT
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
0.87656627
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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