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mmu_ciEcpas_1409
Basic information of circular RNA
PanCircBase ID:
mmu_ciEcpas_1409
mm39_Chr. Position ID:
chr4|58834712|58836121|-
Gene name:
Ecpas
Transcript:
ENSMUST00000102889.10
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
20
Exon/intron offsets:
0
Genomic length:
1409
Exon/intron sizes in nt:
1409
Flanking exon/introns:
chr4:58834659-58836121
Splice length:
1409
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGTTATCAGTTTATCTTTACTCTTCTTTGTTATTTAAATAACTTTGGAATTAAAAAAAAAAACCCGCAGGAACCTGTCTCTGAAGTCTGTGCACTGTTATAATCATAAAGGTGAGGTTTGTTTTTCCGTTCCTACAGATTTATCACACTTCAGAGCTAAGTACAGTTATGGCCAGAACTTAGGTTTGCTAGAAAACATCAGTTCCTCCTTTGAGCCTGTAAGACAGTGAAAAAATATATGAAATTTTGTTTTTCTTTCAGTTCTGAAAATAGGTGAATCTCATAGGACCATCTTCCTGAATTAGGGAATTTACTGCTAAGGATGGATTTACCTGGTTGTTAGATCTTTTTGAGCCTGCGTCTCATGGTGTAGCTGATTCTGCCCCCAGACTTGAGATCTTTCTGCCTTAGCATGTTCCATCATAGCTTGGCCCCATTCTTTTTCAGTAGGTGATAGGGTTTTACAAAGTATTTGTACTAGTTTTTAGTTTTCCATTTGTAAAGTAAACTTATAAATTCTTAGCCTTTATAAGTAATACTTGAGATAAATGTGCTGACTTACTCATTTCATTTAGCAGATTTTAATACTTTGTCTGAAAAGTACTGTTTTTAGGTGCTGTACACATTGTGGTAGGTAATTAGTTGGGAATCCCTAGGACTTCCTGCCATTCAAAGTAATTAGCTCTCCCTGCCCCATCACTGCTACCACTTAATCACAGTACCTACAAAAAAAGCAAACTTTATTAGTATAAAGTTTGTATTTGAAGATTTTAACAACTAGAAAAAGGACTGTTCATTGTATTTTGTTGGCAGTATAGAGAAGAGAAATTATCCTTGAACGTGATGATAGTTAGCTATATAGTGATATCAATAAAAAGACAGCATTATGGGCTGAAGTGATGCACAATGGTTAAGGATACTGGCTGCTCTTTGAGAGAGCCTCGGTTCAATTTCTAGCACCCTCATGGAGATTGAAAACCATATGTAACTCCATGTAACCATATGTAACTCCATGTAACCATATGTAACTCCATGTAACCATATGTAACTCCATGTCCGGGAGGAGAAGACGACTTCTGGTTCTGGAGGCACTGCATGAACATGATACAAAAGCATACATTCAGGCAAACACTCATGAACTAAAAATTAAATAAGGAAGTATAAGGACTATAGAAGCTTATTTTAAAAATCCCTGTTCCATAGATGGAGGTTATGTGAATTAAGGTATCTAACTCTGGATGTCAGTAAAGATTCAGCTTAATTTCTCAGCATTCTTAAGTTAGAAACTCTTGTTATAAATTGCCATTGCCTAATTTTGATTCATTGGCTTCCAGTAGAGGCCAGAGTAATCATTTTCTTTTTTAGCCTTAGGTTTATCAGGGGCATTATCCTAACAAGTTATTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTCCAGTAGAGGCCAGAG
59.54
TTCAGAGACAGGTTCCTGCG
59.68
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTCCAGTAGAGGCCAGAG
59.54
ACAGGTTCCTGCGGGTTTTT
60.4
161
PCR template sequence:
GCCTAATTTTGATTCATTGGCTTCCAGTAGAGGCCAGAGTAATCATTTTCTTTTTTAGCCTTAGGTTTATCAGGGGCATTATCCTAACAAGTTATTTCAGGTATGTTATCAGTTTATCTTTACTCTTCTTTGTTATTTAAATAACTTTGGAATTAAAAAAAAAAACCCGCAGGAACCTGTCTCTGAAGTCTGTGCACTGT
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-19b-3p(1), mmu-miR-101a-3p(1), mmu-miR-19a-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-203-3p(1), mmu-miR-191-5p(1), mmu-miR-511-3p(1), mmu-miR-541-5p(1), mmu-miR-301a-3p(1), mmu-miR-539-5p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAGTTATTTCAGGTATGTTATCAGT
siRNA sets
ATAACATACCTGAAATAAC, TAACATACCTGAAATAACT, AACATACCTGAAATAACTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.890777389
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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