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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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