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mmu_ciHdlbp_983
Basic information of circular RNA
PanCircBase ID:
mmu_ciHdlbp_983
mm39_Chr. Position ID:
chr1|93340229|93341212|-
Gene name:
Hdlbp
Transcript:
ENSMUST00000170883.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
23
Exon/intron offsets:
0
Genomic length:
983
Exon/intron sizes in nt:
983
Flanking exon/introns:
chr1:93340228-93341212
Splice length:
983
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGCAAGAACGAACAGGACAACCTGCCTGGGTTTGGAAACAGTCTGTGTTCAGAGCATATTTCCAACACCAGGGCAGGCAGGAGACAAAACCAGGTGGTATTCCCGTGCAGTCAGAGTGTGGTGGACCTGCTGTGGAGAAGCTCAAGGCAAAGCTCAGTCTCCCTTACTACCCAGATCAAGAGAAATATTTTGATATCTCAGCTTCTACAGAAAAGATAAAAGATAGTACCTCATCTCAAGACAAGCAGGTCACTCCTGTGCCTGTGATGGAGTGCTGTCTGCAGAATTCTGAGAGATGCTGCTCAGGAATTGGGGGAAATCTGGGAACTAGATGGTCACTCCAGGCAACTGGCCTTTCCACAGGAGTTTTTAGTTTTGTTATTTTTTGGTTTTATTGATTTTGGGTTTTTTTGTTTGTTGTTGTTGTCATTGTTGGTTCGGTTTGGGTGGAACACAGTTTGGAGTCCAGTGATAGGGCAGAGATTGGGCACGTTTTGACTGTGACCTGGTGCAGCTTAGCCATAGGCTGTGGGGGTGTCCTGGACTGTCTAGCCTGTGGATGCTCTTATTACCTTATTGGCCTCTTCAATACACCAGCCCTGAAACCTGAAAGGCCTAGAATATTTTATTCAAGCTGATTCAACAGATCCCGGGTTCATGAATTCAGGAAGTAGGAATAGAACTGGAAAGGGTGGTTGACCATCCTATCCATCTTGACAGTCAGCAGCCTGTCCCAAAAGCAAGGGCATACTAGGTGAGGACAGAGCAAGACCTAAGGTTCTCAAGCTAGTGACTGACAGGGACGGTGACCACCAAGGCCTCCTGCTAGCAAGCTTAGGGGTGTTTCAGGCTTGGGGTCTAAATCAGGTTGGAAATCGGGCCTGGGTGGTGGTGGCTTATATTTAGATATACATGCTCATACTCATGAGCTTGTTCTCTGTCTTTCTCTTTGCTCTCTGCCTCATTCTCATTTTATTGTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGGTGGTGGTGGCTTATA
59.08
ACTGTTTCCAAACCCAGGCA
60.03
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGGTGGTGGTGGCTTATA
59.08
CCTGCCCTGGTGTTGGAAAT
60.54
179
PCR template sequence:
CCTGGGTGGTGGTGGCTTATATTTAGATATACATGCTCATACTCATGAGCTTGTTCTCTGTCTTTCTCTTTGCTCTCTGCCTCATTCTCATTTTATTGTAGTGAGCAAGAACGAACAGGACAACCTGCCTGGGTTTGGAAACAGTCTGTGTTCAGAGCATATTTCCAACACCAGGGCAGGCAGGAGACAAAACCAGGTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-138-5p(2), mmu-miR-27a-3p(1), mmu-miR-375-3p(1), mmu-miR-103-3p(1), mmu-miR-322-5p(1), mmu-miR-709(1), mmu-miR-143-3p(1), mmu-miR-339-5p(1), mmu-miR-363-3p(1), mmu-miR-107-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TCATTTTATTGTAGTGAGCAAGAACG
siRNA sets
NA
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
0.783579184
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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