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mmu_circUbr2_930
Basic information of circular RNA
PanCircBase ID:
mmu_circUbr2_930
mm39_Chr. Position ID:
chr17|47262807|47268340|-
Gene name:
Ubr2
Transcript:
ENSMUST00000113337.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
33,32,31,30,29,28,27
Exon/intron offsets:
0,2016,2988,3900,4676,5232,5423
Genomic length:
5533
Exon/intron sizes in nt:
10,41,62,94,20,01,79,80,000
Flanking exon/introns:
chr17:47259577-47262807|chr17:47268340-47270389
Splice length:
930
Other database IDs:
circAtlas: mmu-Ubr2_0044
circBase: hsa_circ_0076394
Human Ortholog IDs:
Mature spliced Sequence:
AGCCTGGTGATGCACCACATAACTCCCCGAGCATCCTAGCTATGCTGGAGACCTTGCAGAACGCCCCCTCCCTGGAAGCCCACAAGGACATGATCAGGTGGTTGCTAAAGATGTTTAATGCAATTAAGAAGATAAGAGAGTGTTCATCCAGCAGCCCTGTGGCCGAGGCGGAGGGAACCATAATGGAGGAGAGCTCAAGAGACAAGGACAAAGCAGAGAGGAAAAGAAAAGCCGAGATCGCCAGACTGCGCCGGGAGAAGATCATGGCCCAGATGTCTGAGATGCAGCGGCACTTCATTGACGAAAACAAAGAGCTCTTCCAGCAGACCCTAGAGCTGGACACCTCTGCCTCTGCCACTCTTGACAGCAGCCCTCCCGTTTCAGACGCAGCTCTTACAGCACTGGGCCCAGCACAGACACAGGTCCCTGAACCGAGACAGTTTGTCACCTGTATATTATGTCAAGAGGAGCAAGAGGTGACTGTGGGAAGCAGGGCGATGGTCTTGGCAGCGTTTGTTCAGAGGTCAACGGTTCTGTCAAAAGACAGGACGAAAACCATCGCGGACCCAGAAAAATATGATCCATTATTCATGCACCCCGATCTGTCTTGTGGGACACACACTGGCAGCTGTGGGCACGTTATGCATGCCCATTGTTGGCAAAGGTATTTTGATTCCGTTCAAGCCAAGGAGCAGCGAAGGCAGCAGCGGCTGCGCTTGCACACTAGCTACGATGTAGAGAATGGCGAGTTCCTCTGCCCGCTCTGTGAGTGCCTGAGCAACACGGTGATCCCCCTGCTGCTTCCTCCCAGGAGCATCCTCAGCAGGAGGTTAAATTTTTCAGACCAACCAGATCTGGCACAGTGGACGAGAGCAGTAACACAGCAGATAAAGGTGGTCCAGATGCTGAGGAGAAAGCACAATGCTGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACGAGAGCAGTAACACAGCA
59.33
TCATGTCCTTGTGGGCTTCC
59.96
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACGAGAGCAGTAACACAGCA
59.33
ATGTCCTTGTGGGCTTCCAG
59.96
155
PCR template sequence:
TTAAATTTTTCAGACCAACCAGATCTGGCACAGTGGACGAGAGCAGTAACACAGCAGATAAAGGTGGTCCAGATGCTGAGGAGAAAGCACAATGCTGCTGAGCCTGGTGATGCACCACATAACTCCCCGAGCATCCTAGCTATGCTGGAGACCTTGCAGAACGCCCCCTCCCTGGAAGCCCACAAGGACATGATCAGGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(2), mmu-miR-188-3p(2), mmu-miR-103-3p(1), mmu-miR-322-5p(1), mmu-miR-222-3p(1), mmu-miR-709(1), mmu-miR-191-5p(1), mmu-miR-22-3p(1), mmu-miR-218-5p(1), mmu-miR-370-3p(1), mmu-miR-107-3p(1), mmu-miR-342-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
CACAATGCTGCTGAGCCTGGTGATGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUBR2_930_ORF_1
1.108
0.239049031
0.999980991
1818
ORF sequence:
ATGCTGGAGACCTTGCAGAACGCCCCCTCCCTGGAAGCCCACAAGGACATGATCAGGTGGTTGCTAAAGATGTTTAATGCAATTAAGAAGATAAGAGAGTGTTCATCCAGCAGCCCTGTGGCCGAGGCGGAGGGAACCATAATGGAGGAGAGCTCAAGAGACAAGGACAAAGCAGAGAGGAAAAGAAAAGCCGAGATCGCCAGACTGCGCCGGGAGAAGATCATGGCCCAGATGTCTGAGATGCAGCGGCACTTCATTGACGAAAACAAAGAGCTCTTCCAGCAGACCCTAGAGCTGGACACCTCTGCCTCTGCCACTCTTGACAGCAGCCCTCCCGTTTCAGACGCAGCTCTTACAGCACTGGGCCCAGCACAGACACAGGTCCCTGAACCGAGACAGTTTGTCACCTGTATATTATGTCAAGAGGAGCAAGAGGTGACTGTGGGAAGCAGGGCGATGGTCTTGGCAGCGTTTGTTCAGAGGTCAACGGTTCTGTCAAAAGACAGGACGAAAACCATCGCGGACCCAGAAAAATATGATCCATTATTCATGCACCCCGATCTGTCTTGTGGGACACACACTGGCAGCTGTGGGCACGTTATGCATGCCCATTGTTGGCAAAGGTATTTTGATTCCGTTCAAGCCAAGGAGCAGCGAAGGCAGCAGCGGCTGCGCTTGCACACTAGCTACGATGTAGAGAATGGCGAGTTCCTCTGCCCGCTCTGTGAGTGCCTGAGCAACACGGTGATCCCCCTGCTGCTTCCTCCCAGGAGCATCCTCAGCAGGAGGTTAAATTTTTCAGACCAACCAGATCTGGCACAGTGGACGAGAGCAGTAACACAGCAGATAAAGGTGGTCCAGATGCTGAGGAGAAAGCACAATGCTGCTGAGCCTGGTGATGCACCACATAACTCCCCGAGCATCCTAGCTATGCTGGAGACCTTGCAGAACGCCCCCTCCCTGGAAGCCCACAAGGACATGATCAGGTGGTTGCTAAAGATGTTTAATGCAATTAAGAAGATAAGAGAGTGTTCATCCAGCAGCCCTGTGGCCGAGGCGGAGGGAACCATAATGGAGGAGAGCTCAAGAGACAAGGACAAAGCAGAGAGGAAAAGAAAAGCCGAGATCGCCAGACTGCGCCGGGAGAAGATCATGGCCCAGATGTCTGAGATGCAGCGGCACTTCATTGACGAAAACAAAGAGCTCTTCCAGCAGACCCTAGAGCTGGACACCTCTGCCTCTGCCACTCTTGACAGCAGCCCTCCCGTTTCAGACGCAGCTCTTACAGCACTGGGCCCAGCACAGACACAGGTCCCTGAACCGAGACAGTTTGTCACCTGTATATTATGTCAAGAGGAGCAAGAGGTGACTGTGGGAAGCAGGGCGATGGTCTTGGCAGCGTTTGTTCAGAGGTCAACGGTTCTGTCAAAAGACAGGACGAAAACCATCGCGGACCCAGAAAAATATGATCCATTATTCATGCACCCCGATCTGTCTTGTGGGACACACACTGGCAGCTGTGGGCACGTTATGCATGCCCATTGTTGGCAAAGGTATTTTGATTCCGTTCAAGCCAAGGAGCAGCGAAGGCAGCAGCGGCTGCGCTTGCACACTAGCTACGATGTAGAGAATGGCGAGTTCCTCTGCCCGCTCTGTGAGTGCCTGAGCAACACGGTGATCCCCCTGCTGCTTCCTCCCAGGAGCATCCTCAGCAGGAGGTTAAATTTTTCAGACCAACCAGATCTGGCACAGTGGACGAGAGCAGTAACACAGCAGATAAAGGTGGTCCAGATGCTGAGGAGAAAGCACAATGCTGCT
Peptide sequence:
MLETLQNAPSLEAHKDMIRWLLKMFNAIKKIRECSSSSPVAEAEGTIMEESSRDKDKAERKRKAEIARLRREKIMAQMSEMQRHFIDENKELFQQTLELDTSASATLDSSPPVSDAALTALGPAQTQVPEPRQFVTCILCQEEQEVTVGSRAMVLAAFVQRSTVLSKDRTKTIADPEKYDPLFMHPDLSCGTHTGSCGHVMHAHCWQRYFDSVQAKEQRRQQRLRLHTSYDVENGEFLCPLCECLSNTVIPLLLPPRSILSRRLNFSDQPDLAQWTRAVTQQIKVVQMLRRKHNAAEPGDAPHNSPSILAMLETLQNAPSLEAHKDMIRWLLKMFNAIKKIRECSSSSPVAEAEGTIMEESSRDKDKAERKRKAEIARLRREKIMAQMSEMQRHFIDENKELFQQTLELDTSASATLDSSPPVSDAALTALGPAQTQVPEPRQFVTCILCQEEQEVTVGSRAMVLAAFVQRSTVLSKDRTKTIADPEKYDPLFMHPDLSCGTHTGSCGHVMHAHCWQRYFDSVQAKEQRRQQRLRLHTSYDVENGEFLCPLCECLSNTVIPLLLPPRSILSRRLNFSDQPDLAQWTRAVTQQIKVVQMLRRKHNAA
IRESfinder result
IRESfinder score
0.400906403
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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