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mmu_circCc2d2b_492
Basic information of circular RNA
PanCircBase ID:
mmu_circCc2d2b_492
mm39_Chr. Position ID:
chr19|40804213|40813550|+
Gene name:
Cc2d2b
Transcript:
ENSMUST00000224596.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
30,31,32,33
Exon/intron offsets:
0,443,6943,9162
Genomic length:
9337
Exon/intron sizes in nt:
13,51,23,59,175
Flanking exon/introns:
chr19:40801773-40804213|chr19:40813550-40815613
Splice length:
492
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGCCATGTGGCTTATGTGTTAACTCAAGAAACTGACGAGTGTTTGCTTTGGAATCCATCGACGGGGCAATGTCATAAGCAGTTTGACCCATTTTGTCCCTTGCAAAGTGTAGATTGTTTGTTCAATGATAAAAATGTCTGGTTTAATATTCAACAAAATAATACACCAATGGCTGTACAGTTTGACTACTCAAAAGAGAGCTTCTGGAAACAGCTGCTTCCAAAAAACGTCCAGGGGACCAAAGCCCAGAGCGTACAGCCTGAAGAAATAGTTTACTCGGACACCAATAAAAGCATGGTAGAAGATCTAAAGAGCAGGATAGAGAGGGCACTGAAATGTAAGATGATGGAATGGCGGCCTAAGCACCCGACACGCTGGAATCGACAGTGCACTTCTGTTCTACGGCAAATCCTTCCGAAGCTAGAGTTTTACCCGGGCAGTTTTGCTTCGTTTGAAGACAGTGACTTGGAAAGGCTGCTACAGTTTTACTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTAGAGTTTTACCCGGGCA
59.75
TGCTTATGACATTGCCCCGT
60.03
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTAGAGTTTTACCCGGGC
59.46
TGCTTATGACATTGCCCCGT
60.03
154
PCR template sequence:
TTCTGTTCTACGGCAAATCCTTCCGAAGCTAGAGTTTTACCCGGGCAGTTTTGCTTCGTTTGAAGACAGTGACTTGGAAAGGCTGCTACAGTTTTACTGGGGCCATGTGGCTTATGTGTTAACTCAAGAAACTGACGAGTGTTTGCTTTGGAATCCATCGACGGGGCAATGTCATAAGCAGTTTGACCCATTTTGTCCCT
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-9-5p(1), mmu-miR-326-3p(1), mmu-miR-495-3p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAGTTTTACTGGGGCCATGTGGCTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCC2D2B_492_ORF_1
0.8173
0.123285218
0.933785122
816
ORF sequence:
ATGGCTGTACAGTTTGACTACTCAAAAGAGAGCTTCTGGAAACAGCTGCTTCCAAAAAACGTCCAGGGGACCAAAGCCCAGAGCGTACAGCCTGAAGAAATAGTTTACTCGGACACCAATAAAAGCATGGTAGAAGATCTAAAGAGCAGGATAGAGAGGGCACTGAAATGTAAGATGATGGAATGGCGGCCTAAGCACCCGACACGCTGGAATCGACAGTGCACTTCTGTTCTACGGCAAATCCTTCCGAAGCTAGAGTTTTACCCGGGCAGTTTTGCTTCGTTTGAAGACAGTGACTTGGAAAGGCTGCTACAGTTTTACTGGGGCCATGTGGCTTATGTGTTAACTCAAGAAACTGACGAGTGTTTGCTTTGGAATCCATCGACGGGGCAATGTCATAAGCAGTTTGACCCATTTTGTCCCTTGCAAAGTGTAGATTGTTTGTTCAATGATAAAAATGTCTGGTTTAATATTCAACAAAATAATACACCAATGGCTGTACAGTTTGACTACTCAAAAGAGAGCTTCTGGAAACAGCTGCTTCCAAAAAACGTCCAGGGGACCAAAGCCCAGAGCGTACAGCCTGAAGAAATAGTTTACTCGGACACCAATAAAAGCATGGTAGAAGATCTAAAGAGCAGGATAGAGAGGGCACTGAAATGTAAGATGATGGAATGGCGGCCTAAGCACCCGACACGCTGGAATCGACAGTGCACTTCTGTTCTACGGCAAATCCTTCCGAAGCTAGAGTTTTACCCGGGCAGTTTTGCTTCGTTTGAAGACAGTGACTTGGAAAGGCTGCTACAGTTTTACTGG
Peptide sequence:
MAVQFDYSKESFWKQLLPKNVQGTKAQSVQPEEIVYSDTNKSMVEDLKSRIERALKCKMMEWRPKHPTRWNRQCTSVLRQILPKLEFYPGSFASFEDSDLERLLQFYWGHVAYVLTQETDECLLWNPSTGQCHKQFDPFCPLQSVDCLFNDKNVWFNIQQNNTPMAVQFDYSKESFWKQLLPKNVQGTKAQSVQPEEIVYSDTNKSMVEDLKSRIERALKCKMMEWRPKHPTRWNRQCTSVLRQILPKLEFYPGSFASFEDSDLERLLQFYW
IRESfinder result
IRESfinder score
0.55448718
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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