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mmu_circCpped1_423
Basic information of circular RNA
PanCircBase ID:
mmu_circCpped1_423
mm39_Chr. Position ID:
chr16|11646038|11646461|-
Gene name:
Cpped1
Transcript:
ENSMUST00000096272.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
423
Exon/intron sizes in nt:
423
Flanking exon/introns:
chr16:11623447-11646038|chr16:11646461-11705441
Splice length:
423
Other database IDs:
circAtlas: mmu-Cpped1_0001
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_16382
Human Ortholog IDs:
Mature spliced Sequence:
GAACTCCATGGCGGCAAGAACAGACCAGGGACCTGCAGCGAGTACTGAAAGCCGTCGACCAGGACATCCCACTGGTGATGGTCAGCGGCAACCATGACTTGGGCAATGCCCCCACAGCCGAGACTGTGGAGGAGTTCTGCCAGACATGGGGAGACGACTACTTCAGCTTTTGGGTCGGGGGCGTCCTGTTCCTGGTGCTCAACTCCCAGTTCTTGTACGATGCCTCCAGGTGCCCCGCACTGAAGCAGGCCCAGGATCACTGGCTGGACCAACAGCTGAACATTGCAGAGCAGAAACAGTGCCAGCACGCCATTGTCTTCCAGCATATCCCGCTATTCCTGCAGAGTATTGATGAAGATGACGACTACTTCAACCTCACTAAGACCGTCCGTAAGGAACTGGCCGAAAAGCTCACCAGAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCCCGCTATTCCTGCAGAG
59.32
TGGTCGACGGCTTTCAGTAC
60.04
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCGCTATTCCTGCAGAGT
60.69
TGGTCGACGGCTTTCAGTAC
60.04
157
PCR template sequence:
CATATCCCGCTATTCCTGCAGAGTATTGATGAAGATGACGACTACTTCAACCTCACTAAGACCGTCCGTAAGGAACTGGCCGAAAAGCTCACCAGAGCAGGAACTCCATGGCGGCAAGAACAGACCAGGGACCTGCAGCGAGTACTGAAAGCCGTCGACCAGGACATCCCACTGGTGATGGTCAGCGGCAACCATGACTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
CTCACCAGAGCAGGAACTCCATGGCG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCPPED1_423_ORF_1
1.2952
0.498308774
0.991209337
768
ORF sequence:
ATGGTCAGCGGCAACCATGACTTGGGCAATGCCCCCACAGCCGAGACTGTGGAGGAGTTCTGCCAGACATGGGGAGACGACTACTTCAGCTTTTGGGTCGGGGGCGTCCTGTTCCTGGTGCTCAACTCCCAGTTCTTGTACGATGCCTCCAGGTGCCCCGCACTGAAGCAGGCCCAGGATCACTGGCTGGACCAACAGCTGAACATTGCAGAGCAGAAACAGTGCCAGCACGCCATTGTCTTCCAGCATATCCCGCTATTCCTGCAGAGTATTGATGAAGATGACGACTACTTCAACCTCACTAAGACCGTCCGTAAGGAACTGGCCGAAAAGCTCACCAGAGCAGGAACTCCATGGCGGCAAGAACAGACCAGGGACCTGCAGCGAGTACTGAAAGCCGTCGACCAGGACATCCCACTGGTGATGGTCAGCGGCAACCATGACTTGGGCAATGCCCCCACAGCCGAGACTGTGGAGGAGTTCTGCCAGACATGGGGAGACGACTACTTCAGCTTTTGGGTCGGGGGCGTCCTGTTCCTGGTGCTCAACTCCCAGTTCTTGTACGATGCCTCCAGGTGCCCCGCACTGAAGCAGGCCCAGGATCACTGGCTGGACCAACAGCTGAACATTGCAGAGCAGAAACAGTGCCAGCACGCCATTGTCTTCCAGCATATCCCGCTATTCCTGCAGAGTATTGATGAAGATGACGACTACTTCAACCTCACTAAGACCGTCCGTAAGGAACTGGCCGAAAAGCTCACCAGAGCA
Peptide sequence:
MVSGNHDLGNAPTAETVEEFCQTWGDDYFSFWVGGVLFLVLNSQFLYDASRCPALKQAQDHWLDQQLNIAEQKQCQHAIVFQHIPLFLQSIDEDDDYFNLTKTVRKELAEKLTRAGTPWRQEQTRDLQRVLKAVDQDIPLVMVSGNHDLGNAPTAETVEEFCQTWGDDYFSFWVGGVLFLVLNSQFLYDASRCPALKQAQDHWLDQQLNIAEQKQCQHAIVFQHIPLFLQSIDEDDDYFNLTKTVRKELAEKLTRA
IRESfinder result
IRESfinder score
0.286468933
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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