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mmu_circUbr3_979
Basic information of circular RNA
PanCircBase ID:
mmu_circUbr3_979
mm39_Chr. Position ID:
chr2|69789910|69803953|+
Gene name:
Ubr3
Transcript:
ENSMUST00000055758.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
19,20,21,22,23
Exon/intron offsets:
0,5807,10570,11493,13582
Genomic length:
14043
Exon/intron sizes in nt:
9,71,42,10,51,74,461
Flanking exon/introns:
chr2:69786450-69789910|chr2:69803953-69808062
Splice length:
979
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_146276
Human Ortholog IDs:
Mature spliced Sequence:
CTGAAGTCTGGGATCAGGAGTTTGATCCTGTCATGGTCATTCTTCGAACCGTTTACCGCCGAGACGTGCAGTCTGCAATGGACAGATACACAGCATTTTTAAAACAGAGTGGAAAATTCCCTGGCAATCCCTGGCCTCCGTATAAGAAAAGAACATCACTCCATCCCAGCTATAAAGGTCTTATGAGACTTCTGCACTGTAAAACTTTACACATCGTGCTCTTCACTCTGCTTTACAAGATTCTGATGGATCATCAAAATCTGTCTGAGCATGTGCTGTGCATGGTCTTGTACCTGATTGAGTTAGGCCTGGAGAACTCTGCTGACGATGACTCCGAGGAAGAGGTATCAATGGGTGGACCAGAGCGTTGTCATGACAGTTGGTTCCCTGGCAGTAACTTGGTATCAAACATGAGGCACTTTATAAATTATGTTAGAGTGCGAGTCCCAGAGACGGCTCCTGAGTTGAAAAGGGATCCCCTCGCCAGCACGAGCTCTGACGCTTTGGACTCTTTACAAAATTCTGGTACAGCTCAAGTTTTCAGCTTAGTAGCAGAGCGTAGAAAGAAATTTCAGGAGATCATCAATCGCAGCAACAGTGAAGCAAATCAGGTGGTTCGGCCCAAGATTCCAAGTAAATGGTCAGCTCCTGGTTCCTCTCCCCAGTTAACCACAGCCATTTTGGAAATTAAGGAAAGCATATTGTCTTTGCTAATAAAACTTCACCACAAACTCTCAGGAAAACAAAACTCTTACTATCCTCCATGGCTTGATGACATAGAAGTTTTAATACAACCAGAAATTCCCAAATACAATCATGGAGATGGTATAACTGCTGTAGAAAGGATTTTGCTAAAAGCTGCAGTGCAAAGCAGAATGAACAAGCGCATCATTGAGGAGATATGCAGAAAAGTGACCCCTCCTGTGCCACCCAAAAAAATCACCGCAGCGGAGAAGAAAACTCTGGACAAGGAGGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAGAAAAGTGACCCCTCC
59.89
TCTCGGCGGTAAACGGTTC
60.08
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAGAAAAGTGACCCCTCC
59.89
GTCTCGGCGGTAAACGGTTC
61.35
142
PCR template sequence:
ACAAGCGCATCATTGAGGAGATATGCAGAAAAGTGACCCCTCCTGTGCCACCCAAAAAAATCACCGCAGCGGAGAAGAAAACTCTGGACAAGGAGGAAAGCTGAAGTCTGGGATCAGGAGTTTGATCCTGTCATGGTCATTCTTCGAACCGTTTACCGCCGAGACGTGCAGTCTGCAATGGACAGATACACAGCATTTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-93-5p(1), mmu-miR-375-3p(1), mmu-miR-204-5p(1), mmu-miR-326-3p(1), mmu-miR-139-5p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAAGGAGGAAAGCTGAAGTCTGGGA
siRNA sets
CTTCAGCTTTCCTCCTTGT, AGACTTCAGCTTTCCTCCT, TCCCAGACTTCAGCTTTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUBR3_979_ORF_1
0.7574
0.098149276
0.967188744
951
ORF sequence:
ATGGTCATTCTTCGAACCGTTTACCGCCGAGACGTGCAGTCTGCAATGGACAGATACACAGCATTTTTAAAACAGAGTGGAAAATTCCCTGGCAATCCCTGGCCTCCGTATAAGAAAAGAACATCACTCCATCCCAGCTATAAAGGTCTTATGAGACTTCTGCACTGTAAAACTTTACACATCGTGCTCTTCACTCTGCTTTACAAGATTCTGATGGATCATCAAAATCTGTCTGAGCATGTGCTGTGCATGGTCTTGTACCTGATTGAGTTAGGCCTGGAGAACTCTGCTGACGATGACTCCGAGGAAGAGGTATCAATGGGTGGACCAGAGCGTTGTCATGACAGTTGGTTCCCTGGCAGTAACTTGGTATCAAACATGAGGCACTTTATAAATTATGTTAGAGTGCGAGTCCCAGAGACGGCTCCTGAGTTGAAAAGGGATCCCCTCGCCAGCACGAGCTCTGACGCTTTGGACTCTTTACAAAATTCTGGTACAGCTCAAGTTTTCAGCTTAGTAGCAGAGCGTAGAAAGAAATTTCAGGAGATCATCAATCGCAGCAACAGTGAAGCAAATCAGGTGGTTCGGCCCAAGATTCCAAGTAAATGGTCAGCTCCTGGTTCCTCTCCCCAGTTAACCACAGCCATTTTGGAAATTAAGGAAAGCATATTGTCTTTGCTAATAAAACTTCACCACAAACTCTCAGGAAAACAAAACTCTTACTATCCTCCATGGCTTGATGACATAGAAGTTTTAATACAACCAGAAATTCCCAAATACAATCATGGAGATGGTATAACTGCTGTAGAAAGGATTTTGCTAAAAGCTGCAGTGCAAAGCAGAATGAACAAGCGCATCATTGAGGAGATATGCAGAAAAGTGACCCCTCCTGTGCCACCCAAAAAAATCACCGCAGCGGAGAAGAAAACTCTGGACAAGGAGGAAAGCTGA
Peptide sequence:
MVILRTVYRRDVQSAMDRYTAFLKQSGKFPGNPWPPYKKRTSLHPSYKGLMRLLHCKTLHIVLFTLLYKILMDHQNLSEHVLCMVLYLIELGLENSADDDSEEEVSMGGPERCHDSWFPGSNLVSNMRHFINYVRVRVPETAPELKRDPLASTSSDALDSLQNSGTAQVFSLVAERRKKFQEIINRSNSEANQVVRPKIPSKWSAPGSSPQLTTAILEIKESILSLLIKLHHKLSGKQNSYYPPWLDDIEVLIQPEIPKYNHGDGITAVERILLKAAVQSRMNKRIIEEICRKVTPPVPPKKITAAEKKTLDKEES
IRESfinder result
IRESfinder score
0.590209842
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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