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mmu_circUbr2_1591
Basic information of circular RNA
PanCircBase ID:
mmu_circUbr2_1591
mm39_Chr. Position ID:
chr17|47270389|47287016|-
Gene name:
Ubr2
Transcript:
ENSMUST00000113337.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
15
Exon/intron indexes:
26,25,24,23,22,21,20,19,18,17,16,15,14,13,12
Exon/intron offsets:
0,2035,3683,4224,5293,6677,7568,7726,8920,9727,10637,13400,14453,16276,16463
Genomic length:
16627
Exon/intron sizes in nt:
1,03,15,54,91,03,53,12,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr17:47268340-47270389|chr17:47287016-47291414
Splice length:
1591
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GCGCGAATGCTCCTCACAGAAGAGAACCTGATGACCGTTATCATTAAGGCTTTCATGGACCATTTGAAACACAGAGATGCCCAGGGCAGATTCCAGTTTGAACGCTACACTGCCCTCCAAGCCTTCAAGTTCAGGAGAGTCCAGAGCCTCATCTTAGATCTCAAGTATGTATTGATTAGCAAACCAACGGAGTGGTCAGATGAGCTGAGGCAGAAGTTCTTACAAGGGTTCGATGCCTTCTTGGAATTACTGAAGTGCATGCAGGGAATGGACCCGATCACGCGTCAGGTGGGACAGCACATTGAGATGGAGCCAGAGTGGGAAGCAGCCTTCACACTGCAGATGAAGCTGACACACGTCATCTCAATGGTGCAGGACTGGTGTGCTCTGGACGAAAAAGTGTTAATTGAAGCTTACAAGAAATGCCTGGCTGTGCTGACACAGTGTCATGGCGGATTTACTGATGGTGAACAGCCAATCACACTCAGTATTTGTGGACACTCGGTGGAAACCATCAGATACTGTGTTTCCCAAGAAAAAGTTAGCATTCACCTCCCAATTTCTCGCTTGCTTGCAGGTTTGCATGTATTGTTAAGCAAAAGTGAAGTGGCATATAAATTTCCAGAGCTCCTACCTCTAAGTGAACTGAGCCCACCCATGTTGATAGAACATCCTCTTAGATGTCTTGTCTTATGTGCTCAAGTGCATGCTGGGATGTGGAGAAGAAATGGCTTCTCTCTAGTAAATCAGATCTATTACTACCATAATGTGAAATGCAGGCGAGAGATGTTCGACAAGGACATAGTGATGCTTCAGACAGGTGTCTCCATGATGGACCCAAACCACTTCCTGATGATCATGCTCAGCCGCTTTGAACTCTATCAGCTCTTCAGCACGCCTGACTATGGGAAGAGATTCAGTTCTGAGGTTACCCATAAGGACGTCGTTCAGCAGAACAACACTCTGATCGAAGAGATGCTCTACCTCATCATCATGCTTGTGGGAGAAAGATTCAACCCTGGGGTTGGACAGGTGGCTGCCACAGATGAAATCAAGAGGGAGATTATCCATCAGTTGAGCATCAAGCCTATGGCTCACAGTGAGCTGGTGAAGTCTCTGCCTGAAGATGAGAACAAGGAGACCGGCATGGAGAGCGTCATCGAGTCCGTTGCACATTTCAAGAAACCTGGGCTCACAGGGCGAGGCATGTATGAGCTGAAGCCAGAGTGTGCCAAAGAGTTCAACCTGTATTTTTATCATTTCTCCAGGGCAGAGCAGTCCAAGGCAGAGGAAGCTCAGCGGAAATTGAAAAGAGAAAATAAAGAAGATACAGCACTCCCTCCTCCGGCTTTGCCACCGTTCTGCCCTTTGTTCGCGAGTCTGGTTAACATCTTGCAGTGTGACGTCATGCTGTACATCATGGGAACGATCCTGCAGTGGGCTGTAGAGCATCACGGGTCTGCCTGGTCAGAGTCCATGCTACAGAGGGTGCTGCATTTGATCGGGATGGCTCTCCAGGAAGAGAAGCACCACTTGGAGAACGCCGTGGAAGGGCACGTGCAGACCTTCACCTTCACACAGAAGATTTCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTCTCCAGGAAGAGAAGC
59.82
CCCTGGGCATCTCTGTGTTT
59.96
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAGGAAGAGAAGCACCAC
59.31
CCCTGGGCATCTCTGTGTTT
59.96
164
PCR template sequence:
CTGCATTTGATCGGGATGGCTCTCCAGGAAGAGAAGCACCACTTGGAGAACGCCGTGGAAGGGCACGTGCAGACCTTCACCTTCACACAGAAGATTTCAAGCGCGAATGCTCCTCACAGAAGAGAACCTGATGACCGTTATCATTAAGGCTTTCATGGACCATTTGAAACACAGAGATGCCCAGGGCAGATTCCAGTTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-140-5p(1), mmu-let-7a-5p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-let-7c-5p(1), mmu-miR-203-3p(1), mmu-let-7d-5p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-34b-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGAAGATTTCAAGCGCGAATGCTCC
siRNA sets
TTCGCGCTTGAAATCTTCT, ATTCGCGCTTGAAATCTTC, TCGCGCTTGAAATCTTCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUBR2_1591_ORF_1
1.2494
0.248771399
0.99994456
1632
ORF sequence:
ATGCTCCTCACAGAAGAGAACCTGATGACCGTTATCATTAAGGCTTTCATGGACCATTTGAAACACAGAGATGCCCAGGGCAGATTCCAGTTTGAACGCTACACTGCCCTCCAAGCCTTCAAGTTCAGGAGAGTCCAGAGCCTCATCTTAGATCTCAAGTATGTATTGATTAGCAAACCAACGGAGTGGTCAGATGAGCTGAGGCAGAAGTTCTTACAAGGGTTCGATGCCTTCTTGGAATTACTGAAGTGCATGCAGGGAATGGACCCGATCACGCGTCAGGTGGGACAGCACATTGAGATGGAGCCAGAGTGGGAAGCAGCCTTCACACTGCAGATGAAGCTGACACACGTCATCTCAATGGTGCAGGACTGGTGTGCTCTGGACGAAAAAGTGTTAATTGAAGCTTACAAGAAATGCCTGGCTGTGCTGACACAGTGTCATGGCGGATTTACTGATGGTGAACAGCCAATCACACTCAGTATTTGTGGACACTCGGTGGAAACCATCAGATACTGTGTTTCCCAAGAAAAAGTTAGCATTCACCTCCCAATTTCTCGCTTGCTTGCAGGTTTGCATGTATTGTTAAGCAAAAGTGAAGTGGCATATAAATTTCCAGAGCTCCTACCTCTAAGTGAACTGAGCCCACCCATGTTGATAGAACATCCTCTTAGATGTCTTGTCTTATGTGCTCAAGTGCATGCTGGGATGTGGAGAAGAAATGGCTTCTCTCTAGTAAATCAGATCTATTACTACCATAATGTGAAATGCAGGCGAGAGATGTTCGACAAGGACATAGTGATGCTTCAGACAGGTGTCTCCATGATGGACCCAAACCACTTCCTGATGATCATGCTCAGCCGCTTTGAACTCTATCAGCTCTTCAGCACGCCTGACTATGGGAAGAGATTCAGTTCTGAGGTTACCCATAAGGACGTCGTTCAGCAGAACAACACTCTGATCGAAGAGATGCTCTACCTCATCATCATGCTTGTGGGAGAAAGATTCAACCCTGGGGTTGGACAGGTGGCTGCCACAGATGAAATCAAGAGGGAGATTATCCATCAGTTGAGCATCAAGCCTATGGCTCACAGTGAGCTGGTGAAGTCTCTGCCTGAAGATGAGAACAAGGAGACCGGCATGGAGAGCGTCATCGAGTCCGTTGCACATTTCAAGAAACCTGGGCTCACAGGGCGAGGCATGTATGAGCTGAAGCCAGAGTGTGCCAAAGAGTTCAACCTGTATTTTTATCATTTCTCCAGGGCAGAGCAGTCCAAGGCAGAGGAAGCTCAGCGGAAATTGAAAAGAGAAAATAAAGAAGATACAGCACTCCCTCCTCCGGCTTTGCCACCGTTCTGCCCTTTGTTCGCGAGTCTGGTTAACATCTTGCAGTGTGACGTCATGCTGTACATCATGGGAACGATCCTGCAGTGGGCTGTAGAGCATCACGGGTCTGCCTGGTCAGAGTCCATGCTACAGAGGGTGCTGCATTTGATCGGGATGGCTCTCCAGGAAGAGAAGCACCACTTGGAGAACGCCGTGGAAGGGCACGTGCAGACCTTCACCTTCACACAGAAGATTTCAAGCGCGAATGCTCCTCACAGAAGAGAACCTGATGACCGTTATCATTAA
Peptide sequence:
MLLTEENLMTVIIKAFMDHLKHRDAQGRFQFERYTALQAFKFRRVQSLILDLKYVLISKPTEWSDELRQKFLQGFDAFLELLKCMQGMDPITRQVGQHIEMEPEWEAAFTLQMKLTHVISMVQDWCALDEKVLIEAYKKCLAVLTQCHGGFTDGEQPITLSICGHSVETIRYCVSQEKVSIHLPISRLLAGLHVLLSKSEVAYKFPELLPLSELSPPMLIEHPLRCLVLCAQVHAGMWRRNGFSLVNQIYYYHNVKCRREMFDKDIVMLQTGVSMMDPNHFLMIMLSRFELYQLFSTPDYGKRFSSEVTHKDVVQQNNTLIEEMLYLIIMLVGERFNPGVGQVAATDEIKREIIHQLSIKPMAHSELVKSLPEDENKETGMESVIESVAHFKKPGLTGRGMYELKPECAKEFNLYFYHFSRAEQSKAEEAQRKLKRENKEDTALPPPALPPFCPLFASLVNILQCDVMLYIMGTILQWAVEHHGSAWSESMLQRVLHLIGMALQEEKHHLENAVEGHVQTFTFTQKISSANAPHRREPDDRYH
IRESfinder result
IRESfinder score
0.506748429
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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