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mmu_circPtgr2_902
Basic information of circular RNA
PanCircBase ID:
mmu_circPtgr2_902
mm39_Chr. Position ID:
chr12|84341990|84355206|+
Gene name:
Ptgr2
Transcript:
ENSMUST00000123614.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
3,4,5,6,7,8
Exon/intron offsets:
0,2794,7020,10709,12559,13128
Genomic length:
13216
Exon/intron sizes in nt:
119,192,171,210,122,88
Flanking exon/introns:
chr12:84339142-84341990|chr12:84355206-84357692
Splice length:
902
Other database IDs:
CIRCpedia: MMU_CIRCpedia_223980, circAtlas: mmu-Ptgr2_0009
CIRCpedia: HSA_CIRCpedia_370069
Human Ortholog IDs:
Mature spliced Sequence:
GGAAAAATGGAAATCCAGTCGCAGAGAACTTCAGGGTGGAAGAGTTCAGTTTACCGGATGCTCTCAATGAAGGTCAAGTTCAAGTGAGGACTCTTTATCTCTCGGTGGATCCTTACATGCGCTGTAAGATGAACGAGGACACTGGCACTGACTACTTGGCACCGTGGCAGCTGGCGCAGGTGGCTGATGGTGGAGGAATTGGAGTTGTAGAGGAGAGCAAGCACCAGAAGTTGACTAAAGGCGATTTTGTGACTTCGTTTTACTGGCCCTGGCAAACTAAGGCAATTCTAGATGGGAATGGCCTTGAAAAGGTAGACCCACAACTTGTAGATGGACACCTTTCATATTTTCTTGGGGCTATAGGTATGCCTGGCTTGACTTCCTTGATTGGGGTACAGGAGAAAGGCCATATATCTGCTGGATCTAATCAGACAATGGTTGTCAGTGGAGCAGCAGGCGCCTGTGGATCTTTGGCTGGGCAGATTGGCCACCTGCTTGGCTGTTCCAGAGTGGTGGGAATTTGTGGAACGCAGGAGAAATGTCTCTTTTTGACCTCAGAGCTGGGGTTTGATGCTGCAGTTAATTACAAAACAGGGAATGTGGCAGAGCAGCTGCGAGAAGCGTGCCCGGGCGGAGTGGATGTCTACTTTGACAATGTTGGAGGTGACATCAGCAACGCGGTGATAAGTCAGATGAATGAGAACAGCCACATCATCCTGTGTGGTCAGATTTCTCAGTACAGTAACGATGTGCCCTACCCTCCTCCACTGCCCCCTGCAGTAGAAGCCATCCGGAAGGAACGAAACATCACAAGAGAGAGATTTACGGTATTAAATTATAAAGATAAATTTGAGCCTGGAATTCTACAGCTGAGTCAGTGGTTTAAAGAAGGAAAGCTAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTGGAATTCTACAGCTGAGT
60.09
AGTCCTCACTTGAACTTGACCT
58.96
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGCCTGGAATTCTACAGCTG
60.09
AGTCCTCACTTGAACTTGACCT
58.96
144
PCR template sequence:
AAACATCACAAGAGAGAGATTTACGGTATTAAATTATAAAGATAAATTTGAGCCTGGAATTCTACAGCTGAGTCAGTGGTTTAAAGAAGGAAAGCTAAAGGGAAAAATGGAAATCCAGTCGCAGAGAACTTCAGGGTGGAAGAGTTCAGTTTACCGGATGCTCTCAATGAAGGTCAAGTTCAAGTGAGGACTCTTTATCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-135a-5p(1), mmu-miR-434-3p(1), mmu-miR-22-3p(1), mmu-miR-107-3p(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
AGGAAAGCTAAAGGGAAAAATGGAAA
siRNA sets
TTCCATTTTTCCCTTTAGC, TTTCCATTTTTCCCTTTAG, TTTTTCCCTTTAGCTTTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPTGR2_902_ORF_1
0.8392
0.170581209
0.96347717
873
ORF sequence:
ATGCGCTGTAAGATGAACGAGGACACTGGCACTGACTACTTGGCACCGTGGCAGCTGGCGCAGGTGGCTGATGGTGGAGGAATTGGAGTTGTAGAGGAGAGCAAGCACCAGAAGTTGACTAAAGGCGATTTTGTGACTTCGTTTTACTGGCCCTGGCAAACTAAGGCAATTCTAGATGGGAATGGCCTTGAAAAGGTAGACCCACAACTTGTAGATGGACACCTTTCATATTTTCTTGGGGCTATAGGTATGCCTGGCTTGACTTCCTTGATTGGGGTACAGGAGAAAGGCCATATATCTGCTGGATCTAATCAGACAATGGTTGTCAGTGGAGCAGCAGGCGCCTGTGGATCTTTGGCTGGGCAGATTGGCCACCTGCTTGGCTGTTCCAGAGTGGTGGGAATTTGTGGAACGCAGGAGAAATGTCTCTTTTTGACCTCAGAGCTGGGGTTTGATGCTGCAGTTAATTACAAAACAGGGAATGTGGCAGAGCAGCTGCGAGAAGCGTGCCCGGGCGGAGTGGATGTCTACTTTGACAATGTTGGAGGTGACATCAGCAACGCGGTGATAAGTCAGATGAATGAGAACAGCCACATCATCCTGTGTGGTCAGATTTCTCAGTACAGTAACGATGTGCCCTACCCTCCTCCACTGCCCCCTGCAGTAGAAGCCATCCGGAAGGAACGAAACATCACAAGAGAGAGATTTACGGTATTAAATTATAAAGATAAATTTGAGCCTGGAATTCTACAGCTGAGTCAGTGGTTTAAAGAAGGAAAGCTAAAGGGAAAAATGGAAATCCAGTCGCAGAGAACTTCAGGGTGGAAGAGTTCAGTTTACCGGATGCTCTCAATGAAGGTCAAGTTCAAGTGA
Peptide sequence:
MRCKMNEDTGTDYLAPWQLAQVADGGGIGVVEESKHQKLTKGDFVTSFYWPWQTKAILDGNGLEKVDPQLVDGHLSYFLGAIGMPGLTSLIGVQEKGHISAGSNQTMVVSGAAGACGSLAGQIGHLLGCSRVVGICGTQEKCLFLTSELGFDAAVNYKTGNVAEQLREACPGGVDVYFDNVGGDISNAVISQMNENSHIILCGQISQYSNDVPYPPPLPPAVEAIRKERNITRERFTVLNYKDKFEPGILQLSQWFKEGKLKGKMEIQSQRTSGWKSSVYRMLSMKVKFK
IRESfinder result
IRESfinder score
0.506007188
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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