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mmu_circPard3b_216
Basic information of circular RNA
PanCircBase ID:
mmu_circPard3b_216
mm39_Chr. Position ID:
chr1|62269337|62278111|+
Gene name:
Pard3b
Transcript:
ENSMUST00000075374.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
14,15
Exon/intron offsets:
0,8658
Genomic length:
8774
Exon/intron sizes in nt:
1,00,116
Flanking exon/introns:
chr1:62255714-62269337|chr1:62278111-62315041
Splice length:
216
Other database IDs:
circAtlas: mmu-Pard3b_0013
Human Ortholog IDs:
Mature spliced Sequence:
ACCTATTGCTTCCCAGTGATGGGTGGGCTGAGAATGAAGTACCACCGTCCCCGCCACCACATCCTGCTCTGGAATGGGGCCTTGAAGATTTCAGTCACAGCTCTGGAGTGGATTCCACAGGATATTTTCCAGATCAACATGTCAACTTCAGAACGGTGACACCAGTCAGGCAGCCCGAATTGATTAACCTTAAAGCCTCCAAGAGCATGGACCTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGAACGGTGACACCAGTC
59.61
CCCCATTCCAGAGCAGGATG
60.18
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGAACGGTGACACCAGTC
59.61
TTCCAGAGCAGGATGTGGTG
59.67
143
PCR template sequence:
ACAGGATATTTTCCAGATCAACATGTCAACTTCAGAACGGTGACACCAGTCAGGCAGCCCGAATTGATTAACCTTAAAGCCTCCAAGAGCATGGACCTTGACCTATTGCTTCCCAGTGATGGGTGGGCTGAGAATGAAGTACCACCGTCCCCGCCACCACATCCTGCTCTGGAATGGGGCCTTGAAGATTTCAGTCACAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
AGCATGGACCTTGACCTATTGCTTCC
siRNA sets
ATAGGTCAAGGTCCATGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPARD3B_216_ORF_1
0.9991
0.135748172
0.228542648
225
ORF sequence:
ATGGACCTTGACCTATTGCTTCCCAGTGATGGGTGGGCTGAGAATGAAGTACCACCGTCCCCGCCACCACATCCTGCTCTGGAATGGGGCCTTGAAGATTTCAGTCACAGCTCTGGAGTGGATTCCACAGGATATTTTCCAGATCAACATGTCAACTTCAGAACGGTGACACCAGTCAGGCAGCCCGAATTGATTAACCTTAAAGCCTCCAAGAGCATGGACCTT
Peptide sequence:
MDLDLLLPSDGWAENEVPPSPPPHPALEWGLEDFSHSSGVDSTGYFPDQHVNFRTVTPVRQPELINLKASKSMDL
IRESfinder result
IRESfinder score
0.707457687
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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