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mmu_circPla2r1_820
Basic information of circular RNA
PanCircBase ID:
mmu_circPla2r1_820
mm39_Chr. Position ID:
chr2|60325598|60346044|-
Gene name:
Pla2r1
Transcript:
ENSMUST00000112525.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
10,9,8,7,6,5
Exon/intron offsets:
0,2305,6784,8872,19651,20332
Genomic length:
20446
Exon/intron sizes in nt:
11,39,91,58,19,51,41,100
Flanking exon/introns:
chr2:60309911-60325598|chr2:60346044-60353109
Splice length:
820
Other database IDs:
circAtlas: mmu-Pla2r1_0006
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
AGCACTTGAGCAAGGTAGTCAAGGAAGTGTGGATTGGTTTGAACCAGCTGGATGAGAAGGCTGGCTGGCAGTGGTCTGATGGAACACCACTCAGCTACCTGAACTGGAGCCAAGAGATAACTCCTGGGCCATTTGTTGAGCATCACTGTGGAACCCTGGAGGTTGTTTCAGCTGCCTGGAGGAGCAGGGACTGCGAGTCCACCTTGCCTTATATATGCAAACGGGATCTAAACCACACTGCGCAGGGAATCCTGGAAAAGGACTCCTGGAAATACCATGCCACTCACTGTGATCCTGACTGGACTCCCTTCAATCGTAAATGCTACAAACTTAAGAAAGACAGAAAGAGCTGGCTTGGGGCTCTGCACTCTTGCCAATCGAATGACAGCGTGTTGATGGATGTAGCTTCGTTGGCAGAGGTGGAGTTTCTTGTAAGCCTCCTTAGGGATGAAAATGCATCAGAAACGTGGATTGGTTTGAGTAGCAATAAAATCCCAGTCTCCTTTGAGTGGTCCAGTGGCTCCTCTGTCATCTTTACTAACTGGTACCCTCTGGAGCCTCGAATTCTTCCAAACAGAAGACAACTGTGTGTCTCAGCCGAGGAATCTGACGGACGCTGGAAAGTGAAAGATTGTAAAGAAAGACTCTTTTATATTTGTAAGAAAGCAGGGCAAGTCCCTGCTGATGAGCAGTCCGGATGTCCAGCGGGCTGGGAGAGACACGGCAGATTTTGTTACAAAATCGACACAGTCCTGCGAAGCTTTGAGGAGGCTTCGAGTGGCTATTACTGCTCTCCTGCGCTCCTGACCATCACCAGCCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTTGAGGAGGCTTCGAGT
60.04
GTTCCATCAGACCACTGCCA
59.96
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTTGAGGAGGCTTCGAGT
60.04
TGTTCCATCAGACCACTGCC
59.96
147
PCR template sequence:
ACGGCAGATTTTGTTACAAAATCGACACAGTCCTGCGAAGCTTTGAGGAGGCTTCGAGTGGCTATTACTGCTCTCCTGCGCTCCTGACCATCACCAGCCGAGCACTTGAGCAAGGTAGTCAAGGAAGTGTGGATTGGTTTGAACCAGCTGGATGAGAAGGCTGGCTGGCAGTGGTCTGATGGAACACCACTCAGCTACCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-137-3p(1), mmu-miR-31-5p(1), mmu-miR-222-3p(1), mmu-miR-138-5p(1), mmu-miR-339-5p(1), mmu-miR-351-5p(1), mmu-miR-182-5p(1), mmu-miR-541-5p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCATCACCAGCCGAGCACTTGAGCAA
siRNA sets
TTGCTCAAGTGCTCGGCTG, AAGTGCTCGGCTGGTGATG, AGTGCTCGGCTGGTGATGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPLA2R1_820_ORF_1
0.6345
0.075511756
0.418494976
480
ORF sequence:
ATGGATGTAGCTTCGTTGGCAGAGGTGGAGTTTCTTGTAAGCCTCCTTAGGGATGAAAATGCATCAGAAACGTGGATTGGTTTGAGTAGCAATAAAATCCCAGTCTCCTTTGAGTGGTCCAGTGGCTCCTCTGTCATCTTTACTAACTGGTACCCTCTGGAGCCTCGAATTCTTCCAAACAGAAGACAACTGTGTGTCTCAGCCGAGGAATCTGACGGACGCTGGAAAGTGAAAGATTGTAAAGAAAGACTCTTTTATATTTGTAAGAAAGCAGGGCAAGTCCCTGCTGATGAGCAGTCCGGATGTCCAGCGGGCTGGGAGAGACACGGCAGATTTTGTTACAAAATCGACACAGTCCTGCGAAGCTTTGAGGAGGCTTCGAGTGGCTATTACTGCTCTCCTGCGCTCCTGACCATCACCAGCCGAGCACTTGAGCAAGGTAGTCAAGGAAGTGTGGATTGGTTTGAACCAGCTGGATGA
Peptide sequence:
MDVASLAEVEFLVSLLRDENASETWIGLSSNKIPVSFEWSSGSSVIFTNWYPLEPRILPNRRQLCVSAEESDGRWKVKDCKERLFYICKKAGQVPADEQSGCPAGWERHGRFCYKIDTVLRSFEEASSGYYCSPALLTITSRALEQGSQGSVDWFEPAG
IRESfinder result
IRESfinder score
0.572517983
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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