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mmu_circUbr2_2417
Basic information of circular RNA
PanCircBase ID:
mmu_circUbr2_2417
mm39_Chr. Position ID:
chr17|47264823|47287016|-
Gene name:
Ubr2
Transcript:
ENSMUST00000113337.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
21
Exon/intron indexes:
32,31,30,29,28,27,26,25,24,23,22,21,20,19,18,17,16,15,14,13,12
Exon/intron offsets:
0,972,1884,2660,3216,3407,5566,7601,9249,9790,10859,12243,13134,13292,14486,15293,16203,18966,20019,21842,22029
Genomic length:
22193
Exon/intron sizes in nt:
1,62,94,20,01,79,81,11,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr17:47262911-47264823|chr17:47287016-47291414
Splice length:
2417
Other database IDs:
circAtlas: mmu-Ubr2_0049
Human Ortholog IDs:
Mature spliced Sequence:
GCGCGAATGCTCCTCACAGAAGAGAACCTGATGACCGTTATCATTAAGGCTTTCATGGACCATTTGAAACACAGAGATGCCCAGGGCAGATTCCAGTTTGAACGCTACACTGCCCTCCAAGCCTTCAAGTTCAGGAGAGTCCAGAGCCTCATCTTAGATCTCAAGTATGTATTGATTAGCAAACCAACGGAGTGGTCAGATGAGCTGAGGCAGAAGTTCTTACAAGGGTTCGATGCCTTCTTGGAATTACTGAAGTGCATGCAGGGAATGGACCCGATCACGCGTCAGGTGGGACAGCACATTGAGATGGAGCCAGAGTGGGAAGCAGCCTTCACACTGCAGATGAAGCTGACACACGTCATCTCAATGGTGCAGGACTGGTGTGCTCTGGACGAAAAAGTGTTAATTGAAGCTTACAAGAAATGCCTGGCTGTGCTGACACAGTGTCATGGCGGATTTACTGATGGTGAACAGCCAATCACACTCAGTATTTGTGGACACTCGGTGGAAACCATCAGATACTGTGTTTCCCAAGAAAAAGTTAGCATTCACCTCCCAATTTCTCGCTTGCTTGCAGGTTTGCATGTATTGTTAAGCAAAAGTGAAGTGGCATATAAATTTCCAGAGCTCCTACCTCTAAGTGAACTGAGCCCACCCATGTTGATAGAACATCCTCTTAGATGTCTTGTCTTATGTGCTCAAGTGCATGCTGGGATGTGGAGAAGAAATGGCTTCTCTCTAGTAAATCAGATCTATTACTACCATAATGTGAAATGCAGGCGAGAGATGTTCGACAAGGACATAGTGATGCTTCAGACAGGTGTCTCCATGATGGACCCAAACCACTTCCTGATGATCATGCTCAGCCGCTTTGAACTCTATCAGCTCTTCAGCACGCCTGACTATGGGAAGAGATTCAGTTCTGAGGTTACCCATAAGGACGTCGTTCAGCAGAACAACACTCTGATCGAAGAGATGCTCTACCTCATCATCATGCTTGTGGGAGAAAGATTCAACCCTGGGGTTGGACAGGTGGCTGCCACAGATGAAATCAAGAGGGAGATTATCCATCAGTTGAGCATCAAGCCTATGGCTCACAGTGAGCTGGTGAAGTCTCTGCCTGAAGATGAGAACAAGGAGACCGGCATGGAGAGCGTCATCGAGTCCGTTGCACATTTCAAGAAACCTGGGCTCACAGGGCGAGGCATGTATGAGCTGAAGCCAGAGTGTGCCAAAGAGTTCAACCTGTATTTTTATCATTTCTCCAGGGCAGAGCAGTCCAAGGCAGAGGAAGCTCAGCGGAAATTGAAAAGAGAAAATAAAGAAGATACAGCACTCCCTCCTCCGGCTTTGCCACCGTTCTGCCCTTTGTTCGCGAGTCTGGTTAACATCTTGCAGTGTGACGTCATGCTGTACATCATGGGAACGATCCTGCAGTGGGCTGTAGAGCATCACGGGTCTGCCTGGTCAGAGTCCATGCTACAGAGGGTGCTGCATTTGATCGGGATGGCTCTCCAGGAAGAGAAGCACCACTTGGAGAACGCCGTGGAAGGGCACGTGCAGACCTTCACCTTCACACAGAAGATTTCAAAGCCTGGTGATGCACCACATAACTCCCCGAGCATCCTAGCTATGCTGGAGACCTTGCAGAACGCCCCCTCCCTGGAAGCCCACAAGGACATGATCAGGTGGTTGCTAAAGATGTTTAATGCAATTAAGAAGATAAGAGAGTGTTCATCCAGCAGCCCTGTGGCCGAGGCGGAGGGAACCATAATGGAGGAGAGCTCAAGAGACAAGGACAAAGCAGAGAGGAAAAGAAAAGCCGAGATCGCCAGACTGCGCCGGGAGAAGATCATGGCCCAGATGTCTGAGATGCAGCGGCACTTCATTGACGAAAACAAAGAGCTCTTCCAGCAGACCCTAGAGCTGGACACCTCTGCCTCTGCCACTCTTGACAGCAGCCCTCCCGTTTCAGACGCAGCTCTTACAGCACTGGGCCCAGCACAGACACAGGTCCCTGAACCGAGACAGTTTGTCACCTGTATATTATGTCAAGAGGAGCAAGAGGTGACTGTGGGAAGCAGGGCGATGGTCTTGGCAGCGTTTGTTCAGAGGTCAACGGTTCTGTCAAAAGACAGGACGAAAACCATCGCGGACCCAGAAAAATATGATCCATTATTCATGCACCCCGATCTGTCTTGTGGGACACACACTGGCAGCTGTGGGCACGTTATGCATGCCCATTGTTGGCAAAGGTATTTTGATTCCGTTCAAGCCAAGGAGCAGCGAAGGCAGCAGCGGCTGCGCTTGCACACTAGCTACGATGTAGAGAATGGCGAGTTCCTCTGCCCGCTCTGTGAGTGCCTGAGCAACACGGTGATCCCCCTGCTGCTTCCTCCCAGGAGCATCCTCAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAATGGCGAGTTCCTCTGC
60.11
CCCTGGGCATCTCTGTGTTT
59.96
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGCAACACGGTGATCCC
60
AAACTGGAATCTGCCCTGGG
59.96
151
PCR template sequence:
GCTACGATGTAGAGAATGGCGAGTTCCTCTGCCCGCTCTGTGAGTGCCTGAGCAACACGGTGATCCCCCTGCTGCTTCCTCCCAGGAGCATCCTCAGCAGGCGCGAATGCTCCTCACAGAAGAGAACCTGATGACCGTTATCATTAAGGCTTTCATGGACCATTTGAAACACAGAGATGCCCAGGGCAGATTCCAGTTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
24
Interacting miRNAs (#binding sites)
mmu-miR-188-3p(3), mmu-miR-298-5p(2), 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-222-3p(1), mmu-miR-709(1), mmu-miR-203-3p(1), mmu-let-7d-5p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-191-5p(1), mmu-miR-22-3p(1), mmu-miR-34b-5p(1), mmu-miR-342-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GCATCCTCAGCAGGCGCGAATGCTCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUBR2_2417_ORF_1
1.2186
0.254025029
0.999999827
2442
ORF sequence:
ATGCTCCTCACAGAAGAGAACCTGATGACCGTTATCATTAAGGCTTTCATGGACCATTTGAAACACAGAGATGCCCAGGGCAGATTCCAGTTTGAACGCTACACTGCCCTCCAAGCCTTCAAGTTCAGGAGAGTCCAGAGCCTCATCTTAGATCTCAAGTATGTATTGATTAGCAAACCAACGGAGTGGTCAGATGAGCTGAGGCAGAAGTTCTTACAAGGGTTCGATGCCTTCTTGGAATTACTGAAGTGCATGCAGGGAATGGACCCGATCACGCGTCAGGTGGGACAGCACATTGAGATGGAGCCAGAGTGGGAAGCAGCCTTCACACTGCAGATGAAGCTGACACACGTCATCTCAATGGTGCAGGACTGGTGTGCTCTGGACGAAAAAGTGTTAATTGAAGCTTACAAGAAATGCCTGGCTGTGCTGACACAGTGTCATGGCGGATTTACTGATGGTGAACAGCCAATCACACTCAGTATTTGTGGACACTCGGTGGAAACCATCAGATACTGTGTTTCCCAAGAAAAAGTTAGCATTCACCTCCCAATTTCTCGCTTGCTTGCAGGTTTGCATGTATTGTTAAGCAAAAGTGAAGTGGCATATAAATTTCCAGAGCTCCTACCTCTAAGTGAACTGAGCCCACCCATGTTGATAGAACATCCTCTTAGATGTCTTGTCTTATGTGCTCAAGTGCATGCTGGGATGTGGAGAAGAAATGGCTTCTCTCTAGTAAATCAGATCTATTACTACCATAATGTGAAATGCAGGCGAGAGATGTTCGACAAGGACATAGTGATGCTTCAGACAGGTGTCTCCATGATGGACCCAAACCACTTCCTGATGATCATGCTCAGCCGCTTTGAACTCTATCAGCTCTTCAGCACGCCTGACTATGGGAAGAGATTCAGTTCTGAGGTTACCCATAAGGACGTCGTTCAGCAGAACAACACTCTGATCGAAGAGATGCTCTACCTCATCATCATGCTTGTGGGAGAAAGATTCAACCCTGGGGTTGGACAGGTGGCTGCCACAGATGAAATCAAGAGGGAGATTATCCATCAGTTGAGCATCAAGCCTATGGCTCACAGTGAGCTGGTGAAGTCTCTGCCTGAAGATGAGAACAAGGAGACCGGCATGGAGAGCGTCATCGAGTCCGTTGCACATTTCAAGAAACCTGGGCTCACAGGGCGAGGCATGTATGAGCTGAAGCCAGAGTGTGCCAAAGAGTTCAACCTGTATTTTTATCATTTCTCCAGGGCAGAGCAGTCCAAGGCAGAGGAAGCTCAGCGGAAATTGAAAAGAGAAAATAAAGAAGATACAGCACTCCCTCCTCCGGCTTTGCCACCGTTCTGCCCTTTGTTCGCGAGTCTGGTTAACATCTTGCAGTGTGACGTCATGCTGTACATCATGGGAACGATCCTGCAGTGGGCTGTAGAGCATCACGGGTCTGCCTGGTCAGAGTCCATGCTACAGAGGGTGCTGCATTTGATCGGGATGGCTCTCCAGGAAGAGAAGCACCACTTGGAGAACGCCGTGGAAGGGCACGTGCAGACCTTCACCTTCACACAGAAGATTTCAAAGCCTGGTGATGCACCACATAACTCCCCGAGCATCCTAGCTATGCTGGAGACCTTGCAGAACGCCCCCTCCCTGGAAGCCCACAAGGACATGATCAGGTGGTTGCTAAAGATGTTTAATGCAATTAAGAAGATAAGAGAGTGTTCATCCAGCAGCCCTGTGGCCGAGGCGGAGGGAACCATAATGGAGGAGAGCTCAAGAGACAAGGACAAAGCAGAGAGGAAAAGAAAAGCCGAGATCGCCAGACTGCGCCGGGAGAAGATCATGGCCCAGATGTCTGAGATGCAGCGGCACTTCATTGACGAAAACAAAGAGCTCTTCCAGCAGACCCTAGAGCTGGACACCTCTGCCTCTGCCACTCTTGACAGCAGCCCTCCCGTTTCAGACGCAGCTCTTACAGCACTGGGCCCAGCACAGACACAGGTCCCTGAACCGAGACAGTTTGTCACCTGTATATTATGTCAAGAGGAGCAAGAGGTGACTGTGGGAAGCAGGGCGATGGTCTTGGCAGCGTTTGTTCAGAGGTCAACGGTTCTGTCAAAAGACAGGACGAAAACCATCGCGGACCCAGAAAAATATGATCCATTATTCATGCACCCCGATCTGTCTTGTGGGACACACACTGGCAGCTGTGGGCACGTTATGCATGCCCATTGTTGGCAAAGGTATTTTGATTCCGTTCAAGCCAAGGAGCAGCGAAGGCAGCAGCGGCTGCGCTTGCACACTAGCTACGATGTAGAGAATGGCGAGTTCCTCTGCCCGCTCTGTGAGTGCCTGAGCAACACGGTGATCCCCCTGCTGCTTCCTCCCAGGAGCATCCTCAGCAGGCGCGAATGCTCCTCACAGAAGAGAACCTGA
Peptide sequence:
MLLTEENLMTVIIKAFMDHLKHRDAQGRFQFERYTALQAFKFRRVQSLILDLKYVLISKPTEWSDELRQKFLQGFDAFLELLKCMQGMDPITRQVGQHIEMEPEWEAAFTLQMKLTHVISMVQDWCALDEKVLIEAYKKCLAVLTQCHGGFTDGEQPITLSICGHSVETIRYCVSQEKVSIHLPISRLLAGLHVLLSKSEVAYKFPELLPLSELSPPMLIEHPLRCLVLCAQVHAGMWRRNGFSLVNQIYYYHNVKCRREMFDKDIVMLQTGVSMMDPNHFLMIMLSRFELYQLFSTPDYGKRFSSEVTHKDVVQQNNTLIEEMLYLIIMLVGERFNPGVGQVAATDEIKREIIHQLSIKPMAHSELVKSLPEDENKETGMESVIESVAHFKKPGLTGRGMYELKPECAKEFNLYFYHFSRAEQSKAEEAQRKLKRENKEDTALPPPALPPFCPLFASLVNILQCDVMLYIMGTILQWAVEHHGSAWSESMLQRVLHLIGMALQEEKHHLENAVEGHVQTFTFTQKISKPGDAPHNSPSILAMLETLQNAPSLEAHKDMIRWLLKMFNAIKKIRECSSSSPVAEAEGTIMEESSRDKDKAERKRKAEIARLRREKIMAQMSEMQRHFIDENKELFQQTLELDTSASATLDSSPPVSDAALTALGPAQTQVPEPRQFVTCILCQEEQEVTVGSRAMVLAAFVQRSTVLSKDRTKTIADPEKYDPLFMHPDLSCGTHTGSCGHVMHAHCWQRYFDSVQAKEQRRQQRLRLHTSYDVENGEFLCPLCECLSNTVIPLLLPPRSILSRRECSSQKRT
IRESfinder result
IRESfinder score
0.466349775
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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