top of page
mmu_circUbr2_1167
Basic information of circular RNA
PanCircBase ID:
mmu_circUbr2_1167
mm39_Chr. Position ID:
chr17|47280116|47294267|-
Gene name:
Ubr2
Transcript:
ENSMUST00000113337.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
17,16,15,14,13,12,11,10,9,8
Exon/intron offsets:
0,910,3673,4726,6549,6736,11298,12163,13075,14030
Genomic length:
14151
Exon/intron sizes in nt:
11,16,21,84,12,91,00,10,00,00,00,00,000
Flanking exon/introns:
chr17:47279375-47280116|chr17:47294267-47296914
Splice length:
1167
Other database IDs:
circAtlas: mmu-Ubr2_0019
Human Ortholog IDs:
Mature spliced Sequence:
AGGAACACCAGCAGACAGACCAAGCCGCTCAAAGTTCAAGTTATGCACTCCTCCGTGGCTGCTCATCAGAATTTTGGTTTGAAAGCTCTGTCGTGGCTGGGAAGTGTTATTGGATACTCAGATGGCCTTCGCAGGATTTTGTGTCAAGTTGGATTACAAGAAGGTCCAGATGGCGAAAACTCTTCTCTGGTCGACAGACTGATGCTTAATGATTCCAAATTATGGAAAGGGGCTAGGAGTGTGTATCACCAGTTGTTCATGAGCAGCCTGCTCATGGACCTCAAGTATAAGAAGCTGTTCGCGCTTCGATTTGCTAAAAATTACCGGCAGTTGCAGAGGGATTTTATGGAGGATGATCACGAGCGGGCAGTGTCGGTGACTGCTCTGTCTGTCCAGTTCTTCACCGCACCGACGCTGGCGCGAATGCTCCTCACAGAAGAGAACCTGATGACCGTTATCATTAAGGCTTTCATGGACCATTTGAAACACAGAGATGCCCAGGGCAGATTCCAGTTTGAACGCTACACTGCCCTCCAAGCCTTCAAGTTCAGGAGAGTCCAGAGCCTCATCTTAGATCTCAAGTATGTATTGATTAGCAAACCAACGGAGTGGTCAGATGAGCTGAGGCAGAAGTTCTTACAAGGGTTCGATGCCTTCTTGGAATTACTGAAGTGCATGCAGGGAATGGACCCGATCACGCGTCAGGTGGGACAGCACATTGAGATGGAGCCAGAGTGGGAAGCAGCCTTCACACTGCAGATGAAGCTGACACACGTCATCTCAATGGTGCAGGACTGGTGTGCTCTGGACGAAAAAGTGTTAATTGAAGCTTACAAGAAATGCCTGGCTGTGCTGACACAGTGTCATGGCGGATTTACTGATGGTGAACAGCCAATCACACTCAGTATTTGTGGACACTCGGTGGAAACCATCAGATACTGTGTTTCCCAAGAAAAAGTTAGCATTCACCTCCCAATTTCTCGCTTGCTTGCAGGTTTGCATGTATTGTTAAGCAAAAGTGAAGTGGCATATAAATTTCCAGAGCTCCTACCTCTAAGTGAACTGAGCCCACCCATGTTGATAGAACATCCTCTTAGATGTCTTGTCTTATGTGCTCAAGTGCATGCTGGGATGTGGAGAAGAAATGGCTTCTCTCTAGTAAATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAAGTGCATGCTGGGATGT
59.96
AGCCACGACAGAGCTTTCAA
59.89
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGTGCATGCTGGGATGTG
59.83
AGCCACGACAGAGCTTTCAA
59.89
149
PCR template sequence:
CCCACCCATGTTGATAGAACATCCTCTTAGATGTCTTGTCTTATGTGCTCAAGTGCATGCTGGGATGTGGAGAAGAAATGGCTTCTCTCTAGTAAATCAGAGGAACACCAGCAGACAGACCAAGCCGCTCAAAGTTCAAGTTATGCACTCCTCCGTGGCTGCTCATCAGAATTTTGGTTTGAAAGCTCTGTCGTGGCTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
18
Interacting miRNAs (#binding sites)
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-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-138-5p(1), mmu-let-7d-5p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-324-3p(1), mmu-miR-34b-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-129-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTAGTAAATCAGAGGAACACCAGCA
siRNA sets
TGTTCCTCTGATTTACTAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUBR2_1167_ORF_1
0.95
0.1505229
0.999998789
2292
ORF sequence:
ATGCACTCCTCCGTGGCTGCTCATCAGAATTTTGGTTTGAAAGCTCTGTCGTGGCTGGGAAGTGTTATTGGATACTCAGATGGCCTTCGCAGGATTTTGTGTCAAGTTGGATTACAAGAAGGTCCAGATGGCGAAAACTCTTCTCTGGTCGACAGACTGATGCTTAATGATTCCAAATTATGGAAAGGGGCTAGGAGTGTGTATCACCAGTTGTTCATGAGCAGCCTGCTCATGGACCTCAAGTATAAGAAGCTGTTCGCGCTTCGATTTGCTAAAAATTACCGGCAGTTGCAGAGGGATTTTATGGAGGATGATCACGAGCGGGCAGTGTCGGTGACTGCTCTGTCTGTCCAGTTCTTCACCGCACCGACGCTGGCGCGAATGCTCCTCACAGAAGAGAACCTGATGACCGTTATCATTAAGGCTTTCATGGACCATTTGAAACACAGAGATGCCCAGGGCAGATTCCAGTTTGAACGCTACACTGCCCTCCAAGCCTTCAAGTTCAGGAGAGTCCAGAGCCTCATCTTAGATCTCAAGTATGTATTGATTAGCAAACCAACGGAGTGGTCAGATGAGCTGAGGCAGAAGTTCTTACAAGGGTTCGATGCCTTCTTGGAATTACTGAAGTGCATGCAGGGAATGGACCCGATCACGCGTCAGGTGGGACAGCACATTGAGATGGAGCCAGAGTGGGAAGCAGCCTTCACACTGCAGATGAAGCTGACACACGTCATCTCAATGGTGCAGGACTGGTGTGCTCTGGACGAAAAAGTGTTAATTGAAGCTTACAAGAAATGCCTGGCTGTGCTGACACAGTGTCATGGCGGATTTACTGATGGTGAACAGCCAATCACACTCAGTATTTGTGGACACTCGGTGGAAACCATCAGATACTGTGTTTCCCAAGAAAAAGTTAGCATTCACCTCCCAATTTCTCGCTTGCTTGCAGGTTTGCATGTATTGTTAAGCAAAAGTGAAGTGGCATATAAATTTCCAGAGCTCCTACCTCTAAGTGAACTGAGCCCACCCATGTTGATAGAACATCCTCTTAGATGTCTTGTCTTATGTGCTCAAGTGCATGCTGGGATGTGGAGAAGAAATGGCTTCTCTCTAGTAAATCAGAGGAACACCAGCAGACAGACCAAGCCGCTCAAAGTTCAAGTTATGCACTCCTCCGTGGCTGCTCATCAGAATTTTGGTTTGAAAGCTCTGTCGTGGCTGGGAAGTGTTATTGGATACTCAGATGGCCTTCGCAGGATTTTGTGTCAAGTTGGATTACAAGAAGGTCCAGATGGCGAAAACTCTTCTCTGGTCGACAGACTGATGCTTAATGATTCCAAATTATGGAAAGGGGCTAGGAGTGTGTATCACCAGTTGTTCATGAGCAGCCTGCTCATGGACCTCAAGTATAAGAAGCTGTTCGCGCTTCGATTTGCTAAAAATTACCGGCAGTTGCAGAGGGATTTTATGGAGGATGATCACGAGCGGGCAGTGTCGGTGACTGCTCTGTCTGTCCAGTTCTTCACCGCACCGACGCTGGCGCGAATGCTCCTCACAGAAGAGAACCTGATGACCGTTATCATTAAGGCTTTCATGGACCATTTGAAACACAGAGATGCCCAGGGCAGATTCCAGTTTGAACGCTACACTGCCCTCCAAGCCTTCAAGTTCAGGAGAGTCCAGAGCCTCATCTTAGATCTCAAGTATGTATTGATTAGCAAACCAACGGAGTGGTCAGATGAGCTGAGGCAGAAGTTCTTACAAGGGTTCGATGCCTTCTTGGAATTACTGAAGTGCATGCAGGGAATGGACCCGATCACGCGTCAGGTGGGACAGCACATTGAGATGGAGCCAGAGTGGGAAGCAGCCTTCACACTGCAGATGAAGCTGACACACGTCATCTCAATGGTGCAGGACTGGTGTGCTCTGGACGAAAAAGTGTTAATTGAAGCTTACAAGAAATGCCTGGCTGTGCTGACACAGTGTCATGGCGGATTTACTGATGGTGAACAGCCAATCACACTCAGTATTTGTGGACACTCGGTGGAAACCATCAGATACTGTGTTTCCCAAGAAAAAGTTAGCATTCACCTCCCAATTTCTCGCTTGCTTGCAGGTTTGCATGTATTGTTAAGCAAAAGTGAAGTGGCATATAAATTTCCAGAGCTCCTACCTCTAAGTGAACTGAGCCCACCCATGTTGATAGAACATCCTCTTAGATGTCTTGTCTTATGTGCTCAAGTGCATGCTGGGATGTGGAGAAGAAATGGCTTCTCTCTAGTAAATCAG
Peptide sequence:
MHSSVAAHQNFGLKALSWLGSVIGYSDGLRRILCQVGLQEGPDGENSSLVDRLMLNDSKLWKGARSVYHQLFMSSLLMDLKYKKLFALRFAKNYRQLQRDFMEDDHERAVSVTALSVQFFTAPTLARMLLTEENLMTVIIKAFMDHLKHRDAQGRFQFERYTALQAFKFRRVQSLILDLKYVLISKPTEWSDELRQKFLQGFDAFLELLKCMQGMDPITRQVGQHIEMEPEWEAAFTLQMKLTHVISMVQDWCALDEKVLIEAYKKCLAVLTQCHGGFTDGEQPITLSICGHSVETIRYCVSQEKVSIHLPISRLLAGLHVLLSKSEVAYKFPELLPLSELSPPMLIEHPLRCLVLCAQVHAGMWRRNGFSLVNQRNTSRQTKPLKVQVMHSSVAAHQNFGLKALSWLGSVIGYSDGLRRILCQVGLQEGPDGENSSLVDRLMLNDSKLWKGARSVYHQLFMSSLLMDLKYKKLFALRFAKNYRQLQRDFMEDDHERAVSVTALSVQFFTAPTLARMLLTEENLMTVIIKAFMDHLKHRDAQGRFQFERYTALQAFKFRRVQSLILDLKYVLISKPTEWSDELRQKFLQGFDAFLELLKCMQGMDPITRQVGQHIEMEPEWEAAFTLQMKLTHVISMVQDWCALDEKVLIEAYKKCLAVLTQCHGGFTDGEQPITLSICGHSVETIRYCVSQEKVSIHLPISRLLAGLHVLLSKSEVAYKFPELLPLSELSPPMLIEHPLRCLVLCAQVHAGMWRRNGFSLVNQ
IRESfinder result
IRESfinder score
0.488612587
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page