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mmu_ciPhb2_402
Basic information of circular RNA
PanCircBase ID:
mmu_ciPhb2_402
mm39_Chr. Position ID:
chr6|124692126|124692528|+
Gene name:
Phb2
Transcript:
ENSMUST00000004375.16
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
402
Exon/intron sizes in nt:
402
Flanking exon/introns:
chr6:124692126-124692544
Splice length:
402
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATATCCTTGTGTTGCACAGAGCGTGGCCTCATCCCGGGGTCAGCCTGTTTCCCATCTTCCACCATGGGCCGGTTGATGAGACCAAGGCGAATGCGACTTGGCCTACTGACTCTTTCTTGGCTTGGGAATGGGGGTTGGGGGGGGGGGGACAACTGGTGAGATCTGAAATCTTGGTGGGGGTACCTAAGGCCTGACTCCCTGCTGTAAGGCCAGATCAATAGCACTACTGGCCTTGCCCTCATGTCAGCTGCCACACAGTACTGGCAGCATCCTGTAGGGAGGCCCACAGGGGGTAGCCAACATGTGAGTAGCCATGTGAGCGCAACCTTGAATCTGACAGCCCAGGGGATTCGAGGGCAGAGGGAGCTTGCCACCAATGTAACCTGGCCCAGAAGAACCCTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGAATCTGACAGCCCAGGG
59.67
TCGCCTTGGTCTCATCAACC
60.04
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGAGTAGCCATGTGAGCG
60.11
AGATGGGAAACAGGCTGACC
59.67
157
PCR template sequence:
TGTGAGTAGCCATGTGAGCGCAACCTTGAATCTGACAGCCCAGGGGATTCGAGGGCAGAGGGAGCTTGCCACCAATGTAACCTGGCCCAGAAGAACCCTTATATCCTTGTGTTGCACAGAGCGTGGCCTCATCCCGGGGTCAGCCTGTTTCCCATCTTCCACCATGGGCCGGTTGATGAGACCAAGGCGAATGCGACTTG
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-150-5p(1), mmu-miR-214-3p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGAAGAACCCTTATATCCTTGTGTT
siRNA sets
AACACAAGGATATAAGGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIPHB2_402_ORF_1
0.6537
-0.074563722
0.115607863
321
ORF sequence:
ATGTCAGCTGCCACACAGTACTGGCAGCATCCTGTAGGGAGGCCCACAGGGGGTAGCCAACATGTGAGTAGCCATGTGAGCGCAACCTTGAATCTGACAGCCCAGGGGATTCGAGGGCAGAGGGAGCTTGCCACCAATGTAACCTGGCCCAGAAGAACCCTTATATCCTTGTGTTGCACAGAGCGTGGCCTCATCCCGGGGTCAGCCTGTTTCCCATCTTCCACCATGGGCCGGTTGATGAGACCAAGGCGAATGCGACTTGGCCTACTGACTCTTTCTTGGCTTGGGAATGGGGGTTGGGGGGGGGGGGACAACTGGTGA
Peptide sequence:
MSAATQYWQHPVGRPTGGSQHVSSHVSATLNLTAQGIRGQRELATNVTWPRRTLISLCCTERGLIPGSACFPSSTMGRLMRPRRMRLGLLTLSWLGNGGWGGGDNW
IRESfinder result
IRESfinder score
0.558649915
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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