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mmu_ciE2f5_1597
Basic information of circular RNA
PanCircBase ID:
mmu_ciE2f5_1597
mm39_Chr. Position ID:
chr3|14666106|14667703|+
Gene name:
E2f5
Transcript:
ENSMUST00000029069.13
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
1597
Exon/intron sizes in nt:
1597
Flanking exon/introns:
chr3:14666106-14667707
Splice length:
1597
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTACTGTATATCTTTTTATTCTTATTTATTTTTGGTTTTTGGAGACAAAGTTTTTCTGTGTAGACAAGGCTGGCCTCTAGTTCAAAGATTTGCTTCCTGGAATTAAAGGCATGGGTCACTGCCACCTGCTATATTTTTTGAACAACCTGTAGATTCTCACAATTCCCCATACACTCAGCCTGTTGATATTTTCAGGAGTTGGGAATATTTTTTGCCTTTTTCTGCAGCAGTGTGTTGCTAGGTTGCTTCTGTTTCTCTTTATGGCAGTAACCTCTTTCACAGATTTTATTTCATGTGTGGGAGAGCAGGGCAACCAAGGGACAAGGAACTTAAGTCAGCAGGACTTAACAGCCTTTTGAAGCTTAAGCTGGATATAGGGAATGGGAAACATAAGTATTGTCATGAAACTCTACAGTAAGTAGTCATCACAAGTGAAACCTGGTGAGCAGTTATCTGAATCTGTTTTATAATCTTGTTCTTAATCCTGCTCCATCTTCTGTGTCCCATGTTTACTGCTTGAAGTGACAGTGTTATATGTTCACTAAAGTGAAGGACACTACATCCAAAATTGTGAAATAAAACTCTATGCCTGTTTATATTATGCATGTTTCAAAAGACAACATGTGTATTGCCCACCCAGAGTGATCAACTGGCCAAGTTATCATTTCATATACAAACTGAATTTCAATGAAAAGACTATTGGTAATACAAATGCCCTTGTCCTATTTTACCAGCACAGTTTTTATGCATTTTAATGAAGTTTGAGGAAAGCTTTATTAGTCTGAAATTGCATAAAAGCTCTGTAGTATATGGCTTCAAAGTAGGTTTATTTGAGGGTAACCTGTTAGTCTGTCATACCTAGTCTTTAGTGTCCTTTTGCTTAAATGGTTTAACTGCTTTAAGAGACAGTATTTATATGAGACTAAAAGGGTGTATAGTCTCAGAATATACAGAACACCAAGTAAAACAAAATAAGGATCAGAAAATTTCCGTGAGAAGAGCTAATTCTGAGAATTGTGAGTCTATGAGCTGACGTGTCTTCATTTTATGTGCAGGGTGCAGCAGGGTGGTGGTAGGGCCTTCATTTTATTGACTCTGACATCATCGGGCCTAGGTTTCTGATTTTTTTTTTTTTTTTAAGACAGGGTCTCAGGTTGGCCTCAAACTCTTTGTGTAGCCAAGGATGACCTTCTGGTCCATCCTGCCTCTTCTCCTTTGCACTGGAATTGCAGGCATGTGCCATGACTATGGCCCATGACCATGACCCATGACTTACCTGGTGTTGGGGATAGAAGGCTGGCACTCTACCAAATGAGATGAGCCTGTATTTGTATTTCTGTTTTTGTGTGTGTGTGTGTTTTTTTAAGAGAAATTCTCAAGTAGCCCGTGGTGGCCTAGAACTCACTGTTTTGCAAAGGTTATCCTGGGATTCTTAGTTCTCTTGCCCTCACCTCCCAAGTGTTGAGACTAAAAACACGCACCACCTAACCTGGTATCCTGGGACTAAACCTACACTTCTGATTTCAGATCTCCCTTACAACATTACTTATGATCTACAGCATTCCTACCGTTGTTAAGTATTTATTTATTTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTGGGACTAAACCTACACT
57.44
GCCAGCCTTGTCTACACAGA
59.68
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTGGGACTAAACCTACACTTC
59.16
GCCAGCCTTGTCTACACAGA
59.68
176
PCR template sequence:
TATCCTGGGACTAAACCTACACTTCTGATTTCAGATCTCCCTTACAACATTACTTATGATCTACAGCATTCCTACCGTTGTTAAGTATTTATTTATTTTGGTAAGTACTGTATATCTTTTTATTCTTATTTATTTTTGGTTTTTGGAGACAAAGTTTTTCTGTGTAGACAAGGCTGGCCTCTAGTTCAAAGATTTGCTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
31
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-34a-5p(1), mmu-miR-200c-3p(1), mmu-miR-146a-5p(1), mmu-miR-130a-3p(1), mmu-miR-152-3p(1), mmu-miR-30c-5p(1), mmu-miR-101b-3p(1), mmu-miR-709(1), mmu-miR-125b-5p(1), mmu-miR-381-3p(1), mmu-miR-30b-5p(1), mmu-miR-494-3p(1), mmu-miR-411-3p(1), mmu-miR-199b-3p(1), mmu-miR-130b-3p(1), mmu-miR-721(1), mmu-miR-199a-3p(1), mmu-miR-183-5p(1), mmu-miR-362-5p(1), mmu-miR-383-5p(1), mmu-miR-410-3p(1), mmu-miR-344d-3p(1), mmu-miR-532-5p(1), mmu-miR-484(1), mmu-miR-466b-3p(1), mmu-miR-3105-3p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTATTTATTTTGGTAAGTACTGTAT
siRNA sets
ATACAGTACTTACCAAAAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIE2F5_1597_ORF_1
0.9539
-0.442576017
0.011862923
129
ORF sequence:
ATGATCTACAGCATTCCTACCGTTGTTAAGTATTTATTTATTTTGGTAAGTACTGTATATCTTTTTATTCTTATTTATTTTTGGTTTTTGGAGACAAAGTTTTTCTGTGTAGACAAGGCTGGCCTCTAG
Peptide sequence:
MIYSIPTVVKYLFILVSTVYLFILIYFWFLETKFFCVDKAGL
IRESfinder result
IRESfinder score
0.887323668
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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