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mmu_circPpp2r5a_392
Basic information of circular RNA
PanCircBase ID:
mmu_circPpp2r5a_392
mm39_Chr. Position ID:
chr1|191094445|191104863|-
Gene name:
Ppp2r5a
Transcript:
ENSMUST00000067976.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,6392,10221
Genomic length:
10418
Exon/intron sizes in nt:
9,31,02,197
Flanking exon/introns:
chr1:191091252-191094445|chr1:191104863-191128432
Splice length:
392
Other database IDs:
CIRCpedia: MMU_CIRCpedia_229253, circAtlas: mmu-Ppp2r5a_0002
circBase: hsa_circ_0111888, circAtlas: hsa-PPP2R5A_0005, CIRCpedia: HSA_CIRCpedia_110515
Human Ortholog IDs:
Mature spliced Sequence:
ATGCCACTTCAAATGAACAGCAAGAGCTTTTCTGCCAGAAGCTACAACAGTGCTGTGTACTGTTTGATTTCATGGACTCTGTCTCAGACTTGAAGAGCAAAGAAATTAAAAGAGCGACGCTGAATGAACTGGTTGAGTATGTTTCAACTAATCGTGGTGTAATTGTTGAATCAGCGTATTCTGATATAGTAAAAATGATCAGTGCTAACATCTTCCGGACACTTCCTCCAAGTGATAATCCAGATTTTGACCCGGAAGAGGATGAGCCCACACTTGAGGCCTCTTGGCCTCACATACAGTTGGTGTATGAATTCTTCTTGAGATTCTTGGAGAGTCCTGATTTCCAGCCCAGCATTGCAAAGCGATACATTGATCAGAAGTTTGTCCAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GATTTCCAGCCCAGCATTGC
60.18
TGCTCTTCAAGTCTGAGACAGA
58.77
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATTTCCAGCCCAGCATTGC
60.18
TCAAGTCTGAGACAGAGTCCA
57.77
147
PCR template sequence:
CATACAGTTGGTGTATGAATTCTTCTTGAGATTCTTGGAGAGTCCTGATTTCCAGCCCAGCATTGCAAAGCGATACATTGATCAGAAGTTTGTCCAACAGATGCCACTTCAAATGAACAGCAAGAGCTTTTCTGCCAGAAGCTACAACAGTGCTGTGTACTGTTTGATTTCATGGACTCTGTCTCAGACTTGAAGAGCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-101a-3p(1), mmu-miR-494-3p(1), mmu-miR-96-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTTGTCCAACAGATGCCACTTCAAA
siRNA sets
TTTGAAGTGGCATCTGTTG, TTGAAGTGGCATCTGTTGG, AAGTGGCATCTGTTGGACA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPP2R5A_392_ORF_1
0.8432
0.115887564
0.442251569
414
ORF sequence:
ATGGACTCTGTCTCAGACTTGAAGAGCAAAGAAATTAAAAGAGCGACGCTGAATGAACTGGTTGAGTATGTTTCAACTAATCGTGGTGTAATTGTTGAATCAGCGTATTCTGATATAGTAAAAATGATCAGTGCTAACATCTTCCGGACACTTCCTCCAAGTGATAATCCAGATTTTGACCCGGAAGAGGATGAGCCCACACTTGAGGCCTCTTGGCCTCACATACAGTTGGTGTATGAATTCTTCTTGAGATTCTTGGAGAGTCCTGATTTCCAGCCCAGCATTGCAAAGCGATACATTGATCAGAAGTTTGTCCAACAGATGCCACTTCAAATGAACAGCAAGAGCTTTTCTGCCAGAAGCTACAACAGTGCTGTGTACTGTTTGATTTCATGGACTCTGTCTCAGACTTGA
Peptide sequence:
MDSVSDLKSKEIKRATLNELVEYVSTNRGVIVESAYSDIVKMISANIFRTLPPSDNPDFDPEEDEPTLEASWPHIQLVYEFFLRFLESPDFQPSIAKRYIDQKFVQQMPLQMNSKSFSARSYNSAVYCLISWTLSQT
IRESfinder result
IRESfinder score
0.688391629
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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