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mmu_circPpp1r21_1031
Basic information of circular RNA
PanCircBase ID:
mmu_circPpp1r21_1031
mm39_Chr. Position ID:
chr17|88850272|88866293|+
Gene name:
Ppp1r21
Transcript:
ENSMUST00000038551.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11
Exon/intron offsets:
0,2476,4723,6649,6946,7817,12005,12737,15744,15932
Genomic length:
16021
Exon/intron sizes in nt:
69,147,102,165,59,95,53,150,102,89
Flanking exon/introns:
chr17:88837746-88850272|chr17:88866293-88869536
Splice length:
1031
Other database IDs:
circAtlas: mmu-Ppp1r21_0001
circBase: hsa_circ_0120213, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_122332
Human Ortholog IDs:
Mature spliced Sequence:
CTTCGAGCTCAGAATCAGGTTCTGAAGAAAGGTGTTGTGGATGAGCAGGCCAGCTCTGCTGCTCTGAAGGAACAACTGAAAATGAAGGACCAGTCCTTGAGGAAACTGCAGCAGGAAATGGACAGTTTGACATTTCGAAATCTGCAGCTTGCCAAGAGGGTGGAACTCCTTCAAGATGAGCTAGCACTAAGTGAACCTCGAGGCAAGAAAAACAAGAAAAGTGGTGAATCTTCTTCTCAGTTGAGCCAAGAGCAGAAGAGCGTCTTTGATGAAGACCTGCAAAAGAAAATCGAGGAGAACGAACGGCTGCACATACAGTTCTTCGAAGCGGACGAGCATCACAGGCACGTGGAAGCGGAGCTGAGGAGTCGGCTGGCCACTCTTGAAACAGAAGCTGCTCAGCACCAAGCTGTGATCGACGGCCTGACCCGGAAGTACATGGAGACCATTGAGAAACTCCAGAGCGACAAGGCAAAGCTAGAAGTAAAATCTCAGACTCTAGAAAAGGAGGCCAAGGAATGTCGACTGCGAACAGAAGAATGTCAATTACAGTTAAAGAATCTTCATGAAGATTTGTCAGGTAGATTAGAGGAATCCTTATCAATCATCAATGAAAAAGTCCCTTTTAATGATACAAAGTGTCATCTGTACAACGCTCTCAATGTTCCCCTGCACAATAGGCGACACCAGCTGAAGATGCGAGATATAGCTGGGCAGGCCCTGGCTTTTGTTCAGGATCTTGTACCGGCTCTTCTGAACTTTCACACCTATACAGAACAGAGGATTCAAATTTTCCCTGTTGATTCTGCCATAGACACTATATCACCATTGAATCAGAAGTTCTCCCAATACCTTCATGAAAACGCATCGTATGTCCGCCCCCTTGAGGAAGGAATGCTGCACTTATTCGAGAGCATTACAGAGGATACTGTGACTGTCCTGGAGACAACTGTGAAATTGAAAATGTTTTCAGATCATCTAACTTCCTACGTACGCTTCCTGAGGAAGATCCTTCCTTATCAGTTAAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCCTGGAGACAACTGTGAA
57.09
TTCCTTCAGAGCAGCAGAGC
60.04
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCCTGGAGACAACTGTGAA
57.09
CCTGCTCATCCACAACACCT
59.96
144
PCR template sequence:
TGACTGTCCTGGAGACAACTGTGAAATTGAAAATGTTTTCAGATCATCTAACTTCCTACGTACGCTTCCTGAGGAAGATCCTTCCTTATCAGTTAAAAAGCTTCGAGCTCAGAATCAGGTTCTGAAGAAAGGTGTTGTGGATGAGCAGGCCAGCTCTGCTGCTCTGAAGGAACAACTGAAAATGAAGGACCAGTCCTTGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(1), mmu-miR-15a-5p(1), mmu-miR-15b-5p(1), mmu-miR-146a-5p(1), mmu-miR-138-5p(1), mmu-miR-24-3p(1), mmu-miR-182-5p(1), mmu-miR-297a-5p(1), mmu-miR-673-5p(1), mmu-miR-335-3p(1), mmu-miR-1904(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATCAGTTAAAAAGCTTCGAGCTCAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPP1R21_1031_ORF_1
1.2531
0.260147468
0.994168225
975
ORF sequence:
ATGAAGGACCAGTCCTTGAGGAAACTGCAGCAGGAAATGGACAGTTTGACATTTCGAAATCTGCAGCTTGCCAAGAGGGTGGAACTCCTTCAAGATGAGCTAGCACTAAGTGAACCTCGAGGCAAGAAAAACAAGAAAAGTGGTGAATCTTCTTCTCAGTTGAGCCAAGAGCAGAAGAGCGTCTTTGATGAAGACCTGCAAAAGAAAATCGAGGAGAACGAACGGCTGCACATACAGTTCTTCGAAGCGGACGAGCATCACAGGCACGTGGAAGCGGAGCTGAGGAGTCGGCTGGCCACTCTTGAAACAGAAGCTGCTCAGCACCAAGCTGTGATCGACGGCCTGACCCGGAAGTACATGGAGACCATTGAGAAACTCCAGAGCGACAAGGCAAAGCTAGAAGTAAAATCTCAGACTCTAGAAAAGGAGGCCAAGGAATGTCGACTGCGAACAGAAGAATGTCAATTACAGTTAAAGAATCTTCATGAAGATTTGTCAGGTAGATTAGAGGAATCCTTATCAATCATCAATGAAAAAGTCCCTTTTAATGATACAAAGTGTCATCTGTACAACGCTCTCAATGTTCCCCTGCACAATAGGCGACACCAGCTGAAGATGCGAGATATAGCTGGGCAGGCCCTGGCTTTTGTTCAGGATCTTGTACCGGCTCTTCTGAACTTTCACACCTATACAGAACAGAGGATTCAAATTTTCCCTGTTGATTCTGCCATAGACACTATATCACCATTGAATCAGAAGTTCTCCCAATACCTTCATGAAAACGCATCGTATGTCCGCCCCCTTGAGGAAGGAATGCTGCACTTATTCGAGAGCATTACAGAGGATACTGTGACTGTCCTGGAGACAACTGTGAAATTGAAAATGTTTTCAGATCATCTAACTTCCTACGTACGCTTCCTGAGGAAGATCCTTCCTTATCAGTTAAAAAGCTTCGAGCTCAGAATCAGGTTCTGA
Peptide sequence:
MKDQSLRKLQQEMDSLTFRNLQLAKRVELLQDELALSEPRGKKNKKSGESSSQLSQEQKSVFDEDLQKKIEENERLHIQFFEADEHHRHVEAELRSRLATLETEAAQHQAVIDGLTRKYMETIEKLQSDKAKLEVKSQTLEKEAKECRLRTEECQLQLKNLHEDLSGRLEESLSIINEKVPFNDTKCHLYNALNVPLHNRRHQLKMRDIAGQALAFVQDLVPALLNFHTYTEQRIQIFPVDSAIDTISPLNQKFSQYLHENASYVRPLEEGMLHLFESITEDTVTVLETTVKLKMFSDHLTSYVRFLRKILPYQLKSFELRIRF
IRESfinder result
IRESfinder score
0.481970314
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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