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mmu_circUbr2_570
Basic information of circular RNA
PanCircBase ID:
mmu_circUbr2_570
mm39_Chr. Position ID:
chr17|47266707|47268340|-
Gene name:
Ubr2
Transcript:
ENSMUST00000113337.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
30,29,28,27
Exon/intron offsets:
0,776,1332,1523
Genomic length:
1633
Exon/intron sizes in nt:
20,01,79,81,110
Flanking exon/introns:
chr17:47265889-47266707|chr17:47268340-47270389
Splice length:
570
Other database IDs:
circAtlas: hsa-UBR2_0106, CIRCpedia: HSA_CIRCpedia_374084
Human Ortholog IDs:
Mature spliced Sequence:
AGCCTGGTGATGCACCACATAACTCCCCGAGCATCCTAGCTATGCTGGAGACCTTGCAGAACGCCCCCTCCCTGGAAGCCCACAAGGACATGATCAGGTGGTTGCTAAAGATGTTTAATGCAATTAAGAAGATAAGAGAGTGTTCATCCAGCAGCCCTGTGGCCGAGGCGGAGGGAACCATAATGGAGGAGAGCTCAAGAGACAAGGACAAAGCAGAGAGGAAAAGAAAAGCCGAGATCGCCAGACTGCGCCGGGAGAAGATCATGGCCCAGATGTCTGAGATGCAGCGGCACTTCATTGACGAAAACAAAGAGCTCTTCCAGCAGACCCTAGAGCTGGACACCTCTGCCTCTGCCACTCTTGACAGCAGCCCTCCCGTTTCAGACGCAGCTCTTACAGCACTGGGCCCAGCACAGACACAGGTCCCTGAACCGAGACAGTTTGTCACCTGTATATTATGTCAAGAGGAGCAAGAGGTGACTGTGGGAAGCAGGGCGATGGTCTTGGCAGCGTTTGTTCAGAGGTCAACGGTTCTGTCAAAAGACAGGACGAAAACCATCGCGGACCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GATGGTCTTGGCAGCGTTTG
60.11
TCATGTCCTTGTGGGCTTCC
59.96
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATGGTCTTGGCAGCGTTTG
60.11
ATGTCCTTGTGGGCTTCCAG
59.96
165
PCR template sequence:
CAAGAGGTGACTGTGGGAAGCAGGGCGATGGTCTTGGCAGCGTTTGTTCAGAGGTCAACGGTTCTGTCAAAAGACAGGACGAAAACCATCGCGGACCCAGAGCCTGGTGATGCACCACATAACTCCCCGAGCATCCTAGCTATGCTGGAGACCTTGCAGAACGCCCCCTCCCTGGAAGCCCACAAGGACATGATCAGGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(1), mmu-miR-709(1), mmu-miR-207(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATCGCGGACCCAGAGCCTGGTGATGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUBR2_570_ORF_1
1.1656
0.30769565
0.997715704
1098
ORF sequence:
ATGCTGGAGACCTTGCAGAACGCCCCCTCCCTGGAAGCCCACAAGGACATGATCAGGTGGTTGCTAAAGATGTTTAATGCAATTAAGAAGATAAGAGAGTGTTCATCCAGCAGCCCTGTGGCCGAGGCGGAGGGAACCATAATGGAGGAGAGCTCAAGAGACAAGGACAAAGCAGAGAGGAAAAGAAAAGCCGAGATCGCCAGACTGCGCCGGGAGAAGATCATGGCCCAGATGTCTGAGATGCAGCGGCACTTCATTGACGAAAACAAAGAGCTCTTCCAGCAGACCCTAGAGCTGGACACCTCTGCCTCTGCCACTCTTGACAGCAGCCCTCCCGTTTCAGACGCAGCTCTTACAGCACTGGGCCCAGCACAGACACAGGTCCCTGAACCGAGACAGTTTGTCACCTGTATATTATGTCAAGAGGAGCAAGAGGTGACTGTGGGAAGCAGGGCGATGGTCTTGGCAGCGTTTGTTCAGAGGTCAACGGTTCTGTCAAAAGACAGGACGAAAACCATCGCGGACCCAGAGCCTGGTGATGCACCACATAACTCCCCGAGCATCCTAGCTATGCTGGAGACCTTGCAGAACGCCCCCTCCCTGGAAGCCCACAAGGACATGATCAGGTGGTTGCTAAAGATGTTTAATGCAATTAAGAAGATAAGAGAGTGTTCATCCAGCAGCCCTGTGGCCGAGGCGGAGGGAACCATAATGGAGGAGAGCTCAAGAGACAAGGACAAAGCAGAGAGGAAAAGAAAAGCCGAGATCGCCAGACTGCGCCGGGAGAAGATCATGGCCCAGATGTCTGAGATGCAGCGGCACTTCATTGACGAAAACAAAGAGCTCTTCCAGCAGACCCTAGAGCTGGACACCTCTGCCTCTGCCACTCTTGACAGCAGCCCTCCCGTTTCAGACGCAGCTCTTACAGCACTGGGCCCAGCACAGACACAGGTCCCTGAACCGAGACAGTTTGTCACCTGTATATTATGTCAAGAGGAGCAAGAGGTGACTGTGGGAAGCAGGGCGATGGTCTTGGCAGCGTTTGTTCAGAGGTCAACGGTTCTGTCAAAAGACAGGACGAAAACCATCGCGGACCCA
Peptide sequence:
MLETLQNAPSLEAHKDMIRWLLKMFNAIKKIRECSSSSPVAEAEGTIMEESSRDKDKAERKRKAEIARLRREKIMAQMSEMQRHFIDENKELFQQTLELDTSASATLDSSPPVSDAALTALGPAQTQVPEPRQFVTCILCQEEQEVTVGSRAMVLAAFVQRSTVLSKDRTKTIADPEPGDAPHNSPSILAMLETLQNAPSLEAHKDMIRWLLKMFNAIKKIRECSSSSPVAEAEGTIMEESSRDKDKAERKRKAEIARLRREKIMAQMSEMQRHFIDENKELFQQTLELDTSASATLDSSPPVSDAALTALGPAQTQVPEPRQFVTCILCQEEQEVTVGSRAMVLAAFVQRSTVLSKDRTKTIADP
IRESfinder result
IRESfinder score
0.373966582
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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