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mmu_circPrrc2b_1093
Basic information of circular RNA
PanCircBase ID:
mmu_circPrrc2b_1093
mm39_Chr. Position ID:
chr2|32073134|32089103|+
Gene name:
Prrc2b
Transcript:
ENSMUST00000036691.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
3,4,5,6,7,8,9,10
Exon/intron offsets:
0,2222,4358,8386,10640,11257,11734,15878
Genomic length:
15969
Exon/intron sizes in nt:
178,103,73,144,242,122,140,91
Flanking exon/introns:
chr2:32072638-32073134|chr2:32089103-32090837
Splice length:
1093
Other database IDs:
circAtlas: mmu-Prrc2b_0018
circBase: hsa_circ_0005708, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_63233
Human Ortholog IDs:
Mature spliced Sequence:
TTATTCCTAGACATGGCTTACAGAGTCTCGGGAAAGTTGCCACAGCCCGGCGTATGCCACCGCCTGCAAACCTGCCAAGCCTGAAGTCTGAAAACAAAGGAAACGACCCCAACATCGTGATAGTTCCCAAGGACGGGACAGGATGGGCCAACAAGCAGGACCAGCAAGACCCAAAGAGTTCCAGTGTGACGGCCTCTCAGCCGCCGGAGTCGCAGCCGCAGCCGGGTTTGCAGAAATCTGTCTCCAATTTGCAGAAACCGACACAGTCTATCAGTCAGGAGAACACAAATTCAGTGCCAGGTGGACCAAAGTCATGGGCACAGCTGAGTGGAAAGCCAGTCGGACACGAAGGTGGTTTAAGGGGCTCAAGCCGACTGTTATCCTTCTCTCCCGAGGAATTTCCGACGCTGAAAGCAGCTGGAGGGCAGGACAAGGCTGGCAAAGAAAAGGGCGCCTTAGATCTGTCGTATGGGCCAGGACCAAGCCTCCGCCCTCAGAATGTGACAAGCTGGAGGGAGGGCGGTGGGCGGAACATCATTTCTGCCGCCTCTCTGAGCGCCTCCCCAACAGAGCTGGGCAGCAGGAACGCCAGTGGGGCAGACGGAGCCCCTTCCTTGGCATGCACCAGCGATTCTAAGGAGCCCTCTCTCCGCCCAGCTCAGCCCAGCCGCAGAGGGGCCTCCCAATTCATGGGGCACGGTTACCAGCCACCCACGTACCATGACATGCTCCCAGCGTTTATGTGTTCACCACAGTCATCAGAGAACCAGACTACGGTGGAACGAAGCTCTTTTCCCCTTCCTCAGCTCCGCCTGGAACCCCGTGTTCCTTTCAGACAGTTCCAGATGAACGACCAAGATGGGAAAGAAAGGCCAGGCGTGGCACGGCCAGTGCGCCCACTGAGGCAGCTGGTGGAGAGGGCACCAAGGCCCACCATCATCAACGCGGAAAACCTGAAGGGCTTGGATGATCTGGACACTGATGCGGATGATGGGTGGGCAGGCCTCCACGAGGAAGTGGACTATTCCGAGAAACTGAAGTTCAGTGATGATGAAGATGAGGAGGATGTTGTGAAGGATGGCCGGTCAAAGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACGAGGAAGTGGACTATTCC
57.83
TCAGACTTCAGGCTTGGCAG
59.96
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACGAGGAAGTGGACTATTCC
57.83
ACTTCAGGCTTGGCAGGTTT
60.11
173
PCR template sequence:
GGTGGGCAGGCCTCCACGAGGAAGTGGACTATTCCGAGAAACTGAAGTTCAGTGATGATGAAGATGAGGAGGATGTTGTGAAGGATGGCCGGTCAAAGTGTTATTCCTAGACATGGCTTACAGAGTCTCGGGAAAGTTGCCACAGCCCGGCGTATGCCACCGCCTGCAAACCTGCCAAGCCTGAAGTCTGAAAACAAAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-185-5p(2), mmu-miR-9-5p(1), mmu-miR-23b-3p(1), mmu-miR-23a-3p(1), mmu-miR-138-5p(1), mmu-miR-431-5p(1), mmu-miR-22-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCCGGTCAAAGTGTTATTCCTAGACA
siRNA sets
TAGGAATAACACTTTGACC, AGGAATAACACTTTGACCG, CTAGGAATAACACTTTGAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPRRC2B_1093_ORF_1
0.8728
0.302436511
0.996142558
1107
ORF sequence:
ATGGCCGGTCAAAGTGTTATTCCTAGACATGGCTTACAGAGTCTCGGGAAAGTTGCCACAGCCCGGCGTATGCCACCGCCTGCAAACCTGCCAAGCCTGAAGTCTGAAAACAAAGGAAACGACCCCAACATCGTGATAGTTCCCAAGGACGGGACAGGATGGGCCAACAAGCAGGACCAGCAAGACCCAAAGAGTTCCAGTGTGACGGCCTCTCAGCCGCCGGAGTCGCAGCCGCAGCCGGGTTTGCAGAAATCTGTCTCCAATTTGCAGAAACCGACACAGTCTATCAGTCAGGAGAACACAAATTCAGTGCCAGGTGGACCAAAGTCATGGGCACAGCTGAGTGGAAAGCCAGTCGGACACGAAGGTGGTTTAAGGGGCTCAAGCCGACTGTTATCCTTCTCTCCCGAGGAATTTCCGACGCTGAAAGCAGCTGGAGGGCAGGACAAGGCTGGCAAAGAAAAGGGCGCCTTAGATCTGTCGTATGGGCCAGGACCAAGCCTCCGCCCTCAGAATGTGACAAGCTGGAGGGAGGGCGGTGGGCGGAACATCATTTCTGCCGCCTCTCTGAGCGCCTCCCCAACAGAGCTGGGCAGCAGGAACGCCAGTGGGGCAGACGGAGCCCCTTCCTTGGCATGCACCAGCGATTCTAAGGAGCCCTCTCTCCGCCCAGCTCAGCCCAGCCGCAGAGGGGCCTCCCAATTCATGGGGCACGGTTACCAGCCACCCACGTACCATGACATGCTCCCAGCGTTTATGTGTTCACCACAGTCATCAGAGAACCAGACTACGGTGGAACGAAGCTCTTTTCCCCTTCCTCAGCTCCGCCTGGAACCCCGTGTTCCTTTCAGACAGTTCCAGATGAACGACCAAGATGGGAAAGAAAGGCCAGGCGTGGCACGGCCAGTGCGCCCACTGAGGCAGCTGGTGGAGAGGGCACCAAGGCCCACCATCATCAACGCGGAAAACCTGAAGGGCTTGGATGATCTGGACACTGATGCGGATGATGGGTGGGCAGGCCTCCACGAGGAAGTGGACTATTCCGAGAAACTGAAGTTCAGTGATGATGAAGATGAGGAGGATGTTGTGAAGGATGGCCGGTCAAAG
Peptide sequence:
MAGQSVIPRHGLQSLGKVATARRMPPPANLPSLKSENKGNDPNIVIVPKDGTGWANKQDQQDPKSSSVTASQPPESQPQPGLQKSVSNLQKPTQSISQENTNSVPGGPKSWAQLSGKPVGHEGGLRGSSRLLSFSPEEFPTLKAAGGQDKAGKEKGALDLSYGPGPSLRPQNVTSWREGGGRNIISAASLSASPTELGSRNASGADGAPSLACTSDSKEPSLRPAQPSRRGASQFMGHGYQPPTYHDMLPAFMCSPQSSENQTTVERSSFPLPQLRLEPRVPFRQFQMNDQDGKERPGVARPVRPLRQLVERAPRPTIINAENLKGLDDLDTDADDGWAGLHEEVDYSEKLKFSDDEDEEDVVKDGRSK
IRESfinder result
IRESfinder score
0.289771046
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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