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mmu_circPgm2_1161
Basic information of circular RNA
PanCircBase ID:
mmu_circPgm2_1161
mm39_Chr. Position ID:
chr5|64260719|64269540|+
Gene name:
Pgm2
Transcript:
ENSMUST00000087324.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
5,6,7,8,9,10,11,12
Exon/intron offsets:
0,337,2378,3231,4292,4793,7139,8631
Genomic length:
8821
Exon/intron sizes in nt:
84,19,41,90,98,18,19,40,00,000
Flanking exon/introns:
chr5:64260281-64260719|chr5:64269540-64273642
Splice length:
1161
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CCGTACACCGTGTCGCACCTGAAACTCTGCGCAGGCATCATGATCACTGCCTCGCACAATCCAAAGCAGGACAATGGCTATAAGGTCTACTGGGACAACGGAGCTCAGATCATCTCTCCCCACGATCGCGGCATTTCTCAGGCCATTGAGGAAAATCTAGAGCCCTGGCCTCAGGCTTGGGAGGAGTCTTTGGTTGACAGTAGTCCCCTTCTTCACAACCCCAGCGCGTCCATCGGTAATGACTACTTTGAAGACCTTAAAAAATACTGTTTTCACAGAACGGTAAACAAGGAGAGCAAGGTGAAGTTCGTGCACACCTCTGTCCATGGTGTGGGCCACGAGTTTGTGCAGTTGGCCTTCAAGGCTTTTGACCTTGCTCCTCCCGAAGCTGTTCCCCAACAGAAAGATCCGGATCCCGAGTTTCCAACTGTCAAATACCCGAATCCTGAGGAGGGCAAAGGTGTCTTGACTTTATCTTTTGCCTTGGCTGACAAAATCAAGGCCAAAATCGTCCTAGCCAATGACCCAGATGCTGACAGGCTCGCTGTGGCTGAGAAGCAAGACAGTGGTGAGTGGAGAGTGTTCTCAGGCAATGAGCTGGGGGCCCTGCTGGGATGGTGGCTCTTCACTTCCTGGAAAGAAAAGAACCAAGATCAAAGTAACCTCAAAGACACATACATGCTGTCCAGCACTGTTTCCTCCAAAATCTTGCGGGCCATAGCCCTGAAGGAAGGCTTTCATTTCGAGGAAACATTAACCGGCTTCAAGTGGATGGGAAACAGAGCCCAACAGCTCGGAGACCAGGGGAAAACAGTCCTATTTGCATTTGAAGAAGCTATCGGATACATGTGCTGTCCCTTTGTTCTGGACAAAGATGGCGTCAGTGCTGCTGTTATTTGTGCAGAGCTGGCGAGCTTTCTAGCAACGAAGAATTTGTCTTTATCTCAGCAGCTAAATGCCATCTATGTGGAGTACGGCTATCATATTACCACAGCTTCATATTTTATCTGCCATGATCAGGGCACAATTCAAAACTTATTTGGAAACCTGAGAAACTATGACGGGAAGAATAATTATCCCAAAATGTGTGGCAAGTTTGAAATCTCTGCTATCAGGGACCTTACAACTGGCTATGATGATAGCCAGCCTGACAAGAAAGCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCAAAATGTGTGGCAAGT
58.21
TTGTGCGAGGCAGTGATCAT
60.04
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCAAAATGTGTGGCAAGT
58.21
ATTGTGCGAGGCAGTGATCA
60.04
145
PCR template sequence:
CGGGAAGAATAATTATCCCAAAATGTGTGGCAAGTTTGAAATCTCTGCTATCAGGGACCTTACAACTGGCTATGATGATAGCCAGCCTGACAAGAAAGCTCCGTACACCGTGTCGCACCTGAAACTCTGCGCAGGCATCATGATCACTGCCTCGCACAATCCAAAGCAGGACAATGGCTATAAGGTCTACTGGGACAACG
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-296-5p(1), mmu-miR-150-5p(1), mmu-miR-709(1), mmu-miR-138-5p(1), mmu-miR-185-5p(1), mmu-miR-433-3p(1), mmu-miR-433-5p(1), mmu-miR-34b-5p(1), mmu-miR-297a-5p(1), mmu-miR-1187(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TGACAAGAAAGCTCCGTACACCGTGT
siRNA sets
TGTACGGAGCTTTCTTGTC, GTACGGAGCTTTCTTGTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPGM2_1161_ORF_1
1.1932
0.24604666
0.999999444
2283
ORF sequence:
ATGATCACTGCCTCGCACAATCCAAAGCAGGACAATGGCTATAAGGTCTACTGGGACAACGGAGCTCAGATCATCTCTCCCCACGATCGCGGCATTTCTCAGGCCATTGAGGAAAATCTAGAGCCCTGGCCTCAGGCTTGGGAGGAGTCTTTGGTTGACAGTAGTCCCCTTCTTCACAACCCCAGCGCGTCCATCGGTAATGACTACTTTGAAGACCTTAAAAAATACTGTTTTCACAGAACGGTAAACAAGGAGAGCAAGGTGAAGTTCGTGCACACCTCTGTCCATGGTGTGGGCCACGAGTTTGTGCAGTTGGCCTTCAAGGCTTTTGACCTTGCTCCTCCCGAAGCTGTTCCCCAACAGAAAGATCCGGATCCCGAGTTTCCAACTGTCAAATACCCGAATCCTGAGGAGGGCAAAGGTGTCTTGACTTTATCTTTTGCCTTGGCTGACAAAATCAAGGCCAAAATCGTCCTAGCCAATGACCCAGATGCTGACAGGCTCGCTGTGGCTGAGAAGCAAGACAGTGGTGAGTGGAGAGTGTTCTCAGGCAATGAGCTGGGGGCCCTGCTGGGATGGTGGCTCTTCACTTCCTGGAAAGAAAAGAACCAAGATCAAAGTAACCTCAAAGACACATACATGCTGTCCAGCACTGTTTCCTCCAAAATCTTGCGGGCCATAGCCCTGAAGGAAGGCTTTCATTTCGAGGAAACATTAACCGGCTTCAAGTGGATGGGAAACAGAGCCCAACAGCTCGGAGACCAGGGGAAAACAGTCCTATTTGCATTTGAAGAAGCTATCGGATACATGTGCTGTCCCTTTGTTCTGGACAAAGATGGCGTCAGTGCTGCTGTTATTTGTGCAGAGCTGGCGAGCTTTCTAGCAACGAAGAATTTGTCTTTATCTCAGCAGCTAAATGCCATCTATGTGGAGTACGGCTATCATATTACCACAGCTTCATATTTTATCTGCCATGATCAGGGCACAATTCAAAACTTATTTGGAAACCTGAGAAACTATGACGGGAAGAATAATTATCCCAAAATGTGTGGCAAGTTTGAAATCTCTGCTATCAGGGACCTTACAACTGGCTATGATGATAGCCAGCCTGACAAGAAAGCTCCGTACACCGTGTCGCACCTGAAACTCTGCGCAGGCATCATGATCACTGCCTCGCACAATCCAAAGCAGGACAATGGCTATAAGGTCTACTGGGACAACGGAGCTCAGATCATCTCTCCCCACGATCGCGGCATTTCTCAGGCCATTGAGGAAAATCTAGAGCCCTGGCCTCAGGCTTGGGAGGAGTCTTTGGTTGACAGTAGTCCCCTTCTTCACAACCCCAGCGCGTCCATCGGTAATGACTACTTTGAAGACCTTAAAAAATACTGTTTTCACAGAACGGTAAACAAGGAGAGCAAGGTGAAGTTCGTGCACACCTCTGTCCATGGTGTGGGCCACGAGTTTGTGCAGTTGGCCTTCAAGGCTTTTGACCTTGCTCCTCCCGAAGCTGTTCCCCAACAGAAAGATCCGGATCCCGAGTTTCCAACTGTCAAATACCCGAATCCTGAGGAGGGCAAAGGTGTCTTGACTTTATCTTTTGCCTTGGCTGACAAAATCAAGGCCAAAATCGTCCTAGCCAATGACCCAGATGCTGACAGGCTCGCTGTGGCTGAGAAGCAAGACAGTGGTGAGTGGAGAGTGTTCTCAGGCAATGAGCTGGGGGCCCTGCTGGGATGGTGGCTCTTCACTTCCTGGAAAGAAAAGAACCAAGATCAAAGTAACCTCAAAGACACATACATGCTGTCCAGCACTGTTTCCTCCAAAATCTTGCGGGCCATAGCCCTGAAGGAAGGCTTTCATTTCGAGGAAACATTAACCGGCTTCAAGTGGATGGGAAACAGAGCCCAACAGCTCGGAGACCAGGGGAAAACAGTCCTATTTGCATTTGAAGAAGCTATCGGATACATGTGCTGTCCCTTTGTTCTGGACAAAGATGGCGTCAGTGCTGCTGTTATTTGTGCAGAGCTGGCGAGCTTTCTAGCAACGAAGAATTTGTCTTTATCTCAGCAGCTAAATGCCATCTATGTGGAGTACGGCTATCATATTACCACAGCTTCATATTTTATCTGCCATGATCAGGGCACAATTCAAAACTTATTTGGAAACCTGAGAAACTATGACGGGAAGAATAATTATCCCAAAATGTGTGGCAAGTTTGAAATCTCTGCTATCAGGGACCTTACAACTGGCTATGATGATAGCCAGCCTGACAAGAAAGCT
Peptide sequence:
MITASHNPKQDNGYKVYWDNGAQIISPHDRGISQAIEENLEPWPQAWEESLVDSSPLLHNPSASIGNDYFEDLKKYCFHRTVNKESKVKFVHTSVHGVGHEFVQLAFKAFDLAPPEAVPQQKDPDPEFPTVKYPNPEEGKGVLTLSFALADKIKAKIVLANDPDADRLAVAEKQDSGEWRVFSGNELGALLGWWLFTSWKEKNQDQSNLKDTYMLSSTVSSKILRAIALKEGFHFEETLTGFKWMGNRAQQLGDQGKTVLFAFEEAIGYMCCPFVLDKDGVSAAVICAELASFLATKNLSLSQQLNAIYVEYGYHITTASYFICHDQGTIQNLFGNLRNYDGKNNYPKMCGKFEISAIRDLTTGYDDSQPDKKAPYTVSHLKLCAGIMITASHNPKQDNGYKVYWDNGAQIISPHDRGISQAIEENLEPWPQAWEESLVDSSPLLHNPSASIGNDYFEDLKKYCFHRTVNKESKVKFVHTSVHGVGHEFVQLAFKAFDLAPPEAVPQQKDPDPEFPTVKYPNPEEGKGVLTLSFALADKIKAKIVLANDPDADRLAVAEKQDSGEWRVFSGNELGALLGWWLFTSWKEKNQDQSNLKDTYMLSSTVSSKILRAIALKEGFHFEETLTGFKWMGNRAQQLGDQGKTVLFAFEEAIGYMCCPFVLDKDGVSAAVICAELASFLATKNLSLSQQLNAIYVEYGYHITTASYFICHDQGTIQNLFGNLRNYDGKNNYPKMCGKFEISAIRDLTTGYDDSQPDKKA
IRESfinder result
IRESfinder score
0.535872445
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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