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mmu_circPpp1r12b_997
Basic information of circular RNA
PanCircBase ID:
mmu_circPpp1r12b_997
mm39_Chr. Position ID:
chr1|134699735|134770471|-
Gene name:
Ppp1r12b
Transcript:
ENSMUST00000045665.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
23,22,21,20,19,18,17,16,15,14
Exon/intron offsets:
0,1428,4378,5317,10153,62437,63787,63980,65855,70645
Genomic length:
70736
Exon/intron sizes in nt:
51,54,105,145,17,42,113,190,189,91
Flanking exon/introns:
chr1:134688233-134699735|chr1:134770471-134793515
Splice length:
997
Other database IDs:
circAtlas: mmu-Ppp1r12b_0033
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTCTTATCTAACTCCTGTACGGGATGAGGAGGCAGAGTCATTACGGAAAGCACGCTCCAGACAAGCTCGGCAGACGCGAAGGTCTACTCAAGGTGTTACCCTAACAGACCTCCAAGAAGCAGAAAAGACTTTCAGCCGTTCGAGGGCAGAGAGACAAGCCCAGGAGCAGCCTGGGGAGAAGCTTGAAGATCCTGGTGGCCTCGAAGGAAGCACCAAGAAGCAGGAGCCATCGGCAGCCCCAACAAAGGGAGCTGGCGAGGGCAGAAGTCTGGAGGAAGAGCCTATCTATCATCGCCTAAGGTATCCAACTCAACCAGACAAACCCACGACACCAGTTTCTCCTTCTGCATCAAGACCCTCACTCTACACTGGCTCTCATCTACTGCGCACAAGCAGAGCTTCAGGCCCTGACTCTGAGAATTCAGAGACTAGCACACACGCCACAGCGGCAAAGGAAATGGACACGAGTGAGAAAGGAGAAGCTGATTTGGATGATCAGTCCTCTAACAGGCTGTCTGTCCGGGAACGGAGAAGAGCTAAAGATAGGCGAAGAGGCACCGGCATTAACTTCTGGACAAATGACGAAGATGAAACAGATGTCTCTGAAGAGGTCAAAGAAGCTTTGCATGAAAGACTTTCTAGGTTGGAGTCAGGAGGCACCAATCCGACCAGCAGCGATTCTTACAGTGACCGTGCCTCAGCAAGAGCCCGTCGGGAGGCCAGGGAGGCTCGTCTAGCCAGCCTGACCAGCCGGGTAGAAGAGGACAGCAACAGGGATTATAAGAAACTCTACGAGAGTGCCCTGACCGAAAACCAAAAGCTGAAAACAAAGCTTCAGGAGGCCCAGCTAGAGCTTGCCGATATAAAAGCCAAGCTTGAGAAGATGGCCCAGCAGAAACAAGAGAAGACCTCTGACCGGTCCTCGGTGCTGGAGGTGGAGAAGCGGGAGAGGCGAGCACTGGAACGGAAAATGTCGGAAATGGAAGAAGAGATGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGCTGGAGGTGGAGAAG
59.7
GAGTAGACCTTCGCGTCTGC
60.52
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGCTGGAGGTGGAGAAG
59.7
CCTTGAGTAGACCTTCGCGT
59.47
166
PCR template sequence:
ACAAGAGAAGACCTCTGACCGGTCCTCGGTGCTGGAGGTGGAGAAGCGGGAGAGGCGAGCACTGGAACGGAAAATGTCGGAAATGGAAGAAGAGATGAAGGTCTTATCTAACTCCTGTACGGGATGAGGAGGCAGAGTCATTACGGAAAGCACGCTCCAGACAAGCTCGGCAGACGCGAAGGTCTACTCAAGGTGTTACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-207(3), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-540-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AGAAGAGATGAAGGTCTTATCTAACT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPP1R12B_997_ORF_1
0.9574
0.419612288
0.908708046
567
ORF sequence:
ATGGACACGAGTGAGAAAGGAGAAGCTGATTTGGATGATCAGTCCTCTAACAGGCTGTCTGTCCGGGAACGGAGAAGAGCTAAAGATAGGCGAAGAGGCACCGGCATTAACTTCTGGACAAATGACGAAGATGAAACAGATGTCTCTGAAGAGGTCAAAGAAGCTTTGCATGAAAGACTTTCTAGGTTGGAGTCAGGAGGCACCAATCCGACCAGCAGCGATTCTTACAGTGACCGTGCCTCAGCAAGAGCCCGTCGGGAGGCCAGGGAGGCTCGTCTAGCCAGCCTGACCAGCCGGGTAGAAGAGGACAGCAACAGGGATTATAAGAAACTCTACGAGAGTGCCCTGACCGAAAACCAAAAGCTGAAAACAAAGCTTCAGGAGGCCCAGCTAGAGCTTGCCGATATAAAAGCCAAGCTTGAGAAGATGGCCCAGCAGAAACAAGAGAAGACCTCTGACCGGTCCTCGGTGCTGGAGGTGGAGAAGCGGGAGAGGCGAGCACTGGAACGGAAAATGTCGGAAATGGAAGAAGAGATGAAGGTCTTATCTAACTCCTGTACGGGATGA
Peptide sequence:
MDTSEKGEADLDDQSSNRLSVRERRRAKDRRRGTGINFWTNDEDETDVSEEVKEALHERLSRLESGGTNPTSSDSYSDRASARARREAREARLASLTSRVEEDSNRDYKKLYESALTENQKLKTKLQEAQLELADIKAKLEKMAQQKQEKTSDRSSVLEVEKRERRALERKMSEMEEEMKVLSNSCTG
IRESfinder result
IRESfinder score
0.300981378
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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