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mmu_circMpdz_1412
Basic information of circular RNA
PanCircBase ID:
mmu_circMpdz_1412
mm39_Chr. Position ID:
chr4|81221829|81254111|-
Gene name:
Mpdz
Transcript:
ENSMUST00000107262.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
32,31,30,29,28,27,26,25,24,23,22
Exon/intron offsets:
0,3207,3505,4637,6564,9907,14001,16753,23272,25834,32083
Genomic length:
32282
Exon/intron sizes in nt:
81,91,92,197,163,99,111,178,96,105,199
Flanking exon/introns:
chr4:81215791-81221829|chr4:81254111-81266866
Splice length:
1412
Other database IDs:
CIRCpedia: MMU_CIRCpedia_222966, circAtlas: mmu-Mpdz_0005
Human Ortholog IDs:
Mature spliced Sequence:
GTATGACAGTAAGTGCCAATAAAGATGGCCTGGGAGTGATTGTGCGGAGCATCATTCATGGGGGCGCCATTAGTCGTGATGGCCGGATTGCTGTGGGCGACTGCATTTTGTCCATTAATGAAGAATCCACCATCAGTCTAACCAATGCCCAGGCACGGGCCATGCTCAGAAGACATTCTCTAATTGGACCTGATATCAAAATTACTTACGTGCCTGCAGAACATTTGGAAGAGTTCAGAGTAAGTTTTGGTCAACAAGCTGGAGGAATAATGGCACTGGATATTTTTTCTTCATACACTGGCAGCAGAGACATTCCAGAACTCCCAGAGCGAGAAGAAGGAGAAGGGGAAGAAAGTGAACTGCAGAATGCTGCCTACAGCAGCTGGAGCCAGCCACGGAGGGTGGAACTTTGGAGAGAACCAAGCAAGTCCTTGGGCATCAGCATTGTTGGTGGTCGAGGAATGGGGAGCCGGCTGAGCAATGGTGAGGTGATGAGGGGCATTTTCATCAAACATGTTCTTGAAGACAGTCCAGCTGGCAAAAATGGAACTCTGAAGCCAGGAGACAGAATAATTGAGGTGGATGGGATGGACCTCAGAGATGCAAGCCATGAACAAGCTGTGGAAGCCATTCGGAAAGCAGGCAACCCTGTAGTGTTTATGGTACAGAGCATTATAAACAGACCAAGGAAATCCCCTTTGCCTTCCTTGCCGCACAGCCTTTACCCTAAGTACAGCTTCAGCAGCACTAACCCATTTGCAGACTCTCTCCAGCTCACCACTGACCAGGCACCCAGCCAGTCAGAATCTGAGACAGAGAAGCCTGCATTGTGCAATGTTCCTCCCTCCTCTCCTTCAGTGTTCTCAGAAATGGGTAGTGATTGTGCACAGCCATCTGCAACCGCAGTCTCAGAAGATGAGGACAAAGAGGATGAGTTTGGTTACAGCTGGAAAAATATCCAGGAGCGCTATGGAAGCCTGACAGGTCAGCTCCATGTGATTGAGCTGGAGAAAGGGCAGAGCGGGTTGGGTCTGAGTCTTGCTGGGAACAAAGACCGCACCAGAATGAGTGTGTTTATAGTGGGGATTGATCCCACTGGAGCAGCGGGGAGAGATGGCCGACTACAGATTGCCGACGAGCTTTTAGAGATCAATGGCCAAATATTGTATGGCAGAAGTCATCAGAATGCTTCATCAATTATTAAATGTGCTCCATCTAAAGTAAAAATAATTTTTATCAGAAATGCAGATGCAGTGAACCAGATGGCCGTATGTCCTGGAATTGCAGCAGACTCTCCGTCTTCCACCTCAGACAGTCCTCAGAACAAGGAGGTGGAACCATGCAGTACTACATCTGCTTCCGCTGCGGACCTCAGCTCACTTACAGATGTGTACCAGCTGGAGCTTCCTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTACATCTGCTTCCGCTGC
60.46
TCCGGCCATCACGACTAATG
59.9
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTACATCTGCTTCCGCTGC
60.46
CAATCCGGCCATCACGACTA
59.9
156
PCR template sequence:
CAGTCCTCAGAACAAGGAGGTGGAACCATGCAGTACTACATCTGCTTCCGCTGCGGACCTCAGCTCACTTACAGATGTGTACCAGCTGGAGCTTCCTAAGGTATGACAGTAAGTGCCAATAAAGATGGCCTGGGAGTGATTGTGCGGAGCATCATTCATGGGGGCGCCATTAGTCGTGATGGCCGGATTGCTGTGGGCGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(1), mmu-miR-32-5p(1), mmu-miR-7b-5p(1), mmu-miR-103-3p(1), mmu-miR-135a-5p(1), mmu-miR-217-5p(1), mmu-miR-7a-5p(1), mmu-miR-363-3p(1), mmu-miR-22-3p(1), mmu-miR-107-3p(1), mmu-miR-129-5p(1), mmu-miR-207(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAGCTTCCTAAGGTATGACAGTAAG
siRNA sets
CTTACTGTCATACCTTAGG, TTACTGTCATACCTTAGGA, CTGTCATACCTTAGGAAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMPDZ_1412_ORF_1
0.8769
0.179860919
0.999308046
1416
ORF sequence:
ATGACAGTAAGTGCCAATAAAGATGGCCTGGGAGTGATTGTGCGGAGCATCATTCATGGGGGCGCCATTAGTCGTGATGGCCGGATTGCTGTGGGCGACTGCATTTTGTCCATTAATGAAGAATCCACCATCAGTCTAACCAATGCCCAGGCACGGGCCATGCTCAGAAGACATTCTCTAATTGGACCTGATATCAAAATTACTTACGTGCCTGCAGAACATTTGGAAGAGTTCAGAGTAAGTTTTGGTCAACAAGCTGGAGGAATAATGGCACTGGATATTTTTTCTTCATACACTGGCAGCAGAGACATTCCAGAACTCCCAGAGCGAGAAGAAGGAGAAGGGGAAGAAAGTGAACTGCAGAATGCTGCCTACAGCAGCTGGAGCCAGCCACGGAGGGTGGAACTTTGGAGAGAACCAAGCAAGTCCTTGGGCATCAGCATTGTTGGTGGTCGAGGAATGGGGAGCCGGCTGAGCAATGGTGAGGTGATGAGGGGCATTTTCATCAAACATGTTCTTGAAGACAGTCCAGCTGGCAAAAATGGAACTCTGAAGCCAGGAGACAGAATAATTGAGGTGGATGGGATGGACCTCAGAGATGCAAGCCATGAACAAGCTGTGGAAGCCATTCGGAAAGCAGGCAACCCTGTAGTGTTTATGGTACAGAGCATTATAAACAGACCAAGGAAATCCCCTTTGCCTTCCTTGCCGCACAGCCTTTACCCTAAGTACAGCTTCAGCAGCACTAACCCATTTGCAGACTCTCTCCAGCTCACCACTGACCAGGCACCCAGCCAGTCAGAATCTGAGACAGAGAAGCCTGCATTGTGCAATGTTCCTCCCTCCTCTCCTTCAGTGTTCTCAGAAATGGGTAGTGATTGTGCACAGCCATCTGCAACCGCAGTCTCAGAAGATGAGGACAAAGAGGATGAGTTTGGTTACAGCTGGAAAAATATCCAGGAGCGCTATGGAAGCCTGACAGGTCAGCTCCATGTGATTGAGCTGGAGAAAGGGCAGAGCGGGTTGGGTCTGAGTCTTGCTGGGAACAAAGACCGCACCAGAATGAGTGTGTTTATAGTGGGGATTGATCCCACTGGAGCAGCGGGGAGAGATGGCCGACTACAGATTGCCGACGAGCTTTTAGAGATCAATGGCCAAATATTGTATGGCAGAAGTCATCAGAATGCTTCATCAATTATTAAATGTGCTCCATCTAAAGTAAAAATAATTTTTATCAGAAATGCAGATGCAGTGAACCAGATGGCCGTATGTCCTGGAATTGCAGCAGACTCTCCGTCTTCCACCTCAGACAGTCCTCAGAACAAGGAGGTGGAACCATGCAGTACTACATCTGCTTCCGCTGCGGACCTCAGCTCACTTACAGATGTGTACCAGCTGGAGCTTCCTAAGGTATGA
Peptide sequence:
MTVSANKDGLGVIVRSIIHGGAISRDGRIAVGDCILSINEESTISLTNAQARAMLRRHSLIGPDIKITYVPAEHLEEFRVSFGQQAGGIMALDIFSSYTGSRDIPELPEREEGEGEESELQNAAYSSWSQPRRVELWREPSKSLGISIVGGRGMGSRLSNGEVMRGIFIKHVLEDSPAGKNGTLKPGDRIIEVDGMDLRDASHEQAVEAIRKAGNPVVFMVQSIINRPRKSPLPSLPHSLYPKYSFSSTNPFADSLQLTTDQAPSQSESETEKPALCNVPPSSPSVFSEMGSDCAQPSATAVSEDEDKEDEFGYSWKNIQERYGSLTGQLHVIELEKGQSGLGLSLAGNKDRTRMSVFIVGIDPTGAAGRDGRLQIADELLEINGQILYGRSHQNASSIIKCAPSKVKIIFIRNADAVNQMAVCPGIAADSPSSTSDSPQNKEVEPCSTTSASAADLSSLTDVYQLELPKV
IRESfinder result
IRESfinder score
0.439249367
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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