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mmu_circUbe2cbp_870
Basic information of circular RNA
PanCircBase ID:
mmu_circUbe2cbp_870
mm39_Chr. Position ID:
chr9|86304893|86334063|-
Gene name:
Ube2cbp
Transcript:
ENSMUST00000034986.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
8,7,6,5,4,3,2
Exon/intron offsets:
0,2421,4527,12443,17745,25922,28973
Genomic length:
29170
Exon/intron sizes in nt:
164,109,70,70,169,91,197
Flanking exon/introns:
chr9:86254532-86304893|chr9:86334063-86346793
Splice length:
870
Other database IDs:
circBase: mmu_circ_0015963, CIRCpedia: MMU_CIRCpedia_32435, circAtlas: mmu-Ube2cbp_0007
circBase: hsa_circ_0132404, circAtlas: hsa-UBE3D_0011, CIRCpedia: HSA_CIRCpedia_99815
Human Ortholog IDs:
Mature spliced Sequence:
TGGGCCAGATGAAGGAGGGATGCACCTGGACATTTCCATAACGCCCACCTCTCTTTTGGTGAGAACCCCTGACGGCTGCACCGAGATCCGACTTCCAGCAGGGGTCAGACTTGTACCTTCCTCGTGTGGCGGGCTGCAGTATATCAGTGGCGATGGTTTACATCTGCGCTTGCGGGTCCAGGCTGAATCCAGCCCACAGCCGATTTCAGTGTTTAATCAAAGCTTGCAAGCCCAAGAATGTTGCACCTTTTATTGCCAGTCCTGTGGTGAAGTCACGATAAAGGACAGGAAACTCCTCAGGGTGCTCCCCCTGCCCAGTGAGAACTGGAGCGCTCTGGTCGGAGAGTGGTGCTGCCATCCCGACCCCTTTGCTAATAGGCCTCTTCATCCGAGAGAAAATGACTGTTTTATTGGGGACTCTTTCTTCTTAGTGAATTTGAAAAGTGATTTGGAGCAGGAACCAAAAGCAAATACCAAAGTCATTTGTAAGCGTTGCAAGGTAACGTTGGGAGAGACCATGTCATCAGAAACAACCAAATTTTACATGACAGAGGTAATTATCCGGCCATCTGAGGGAAGTTTTCCTAACATACCAAGGTCTCAGTTCCTTCAGAGCATTATTGCCCAGTGCCTGGTGGAGCTCTCCTCTGCTAGAAGTACTTTCAGATTCACGATTCAAGGTCAGGATGGCAAAGTGTACATCTTGCTCTGGGTTTTGAACTCAGACAGTTTGGTGATCGAACCTCTGAGAAGTTCCAGTTGTAGCAGGAAGTTCCCGCTGTTGGAAAGTTCCTTGGAAGCTGGCTCTGGCTCTGCCTGGAATGCCATCAAAGTCCTCTACCAGCCCTGTATCAAAAGCAGGAATAAAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCTTGGAAGCTGGCTCTG
59.96
CTGGAAGTCGGATCTCGGTG
59.9
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTTCCTTGGAAGCTGGCTCT
59.96
CTGGAAGTCGGATCTCGGTG
59.9
180
PCR template sequence:
AGTTCCCGCTGTTGGAAAGTTCCTTGGAAGCTGGCTCTGGCTCTGCCTGGAATGCCATCAAAGTCCTCTACCAGCCCTGTATCAAAAGCAGGAATAAAGATGGGCCAGATGAAGGAGGGATGCACCTGGACATTTCCATAACGCCCACCTCTCTTTTGGTGAGAACCCCTGACGGCTGCACCGAGATCCGACTTCCAGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-20b-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-150-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-298-5p(1), mmu-miR-503-5p(1), mmu-miR-351-5p(1), mmu-miR-370-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCAGGAATAAAGATGGGCCAGATGAA
siRNA sets
TCTGGCCCATCTTTATTCC, CTGGCCCATCTTTATTCCT, ATCTGGCCCATCTTTATTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUBE2CBP_870_ORF_1
0.6446
0.082312694
0.999826009
1719
ORF sequence:
ATGCACCTGGACATTTCCATAACGCCCACCTCTCTTTTGGTGAGAACCCCTGACGGCTGCACCGAGATCCGACTTCCAGCAGGGGTCAGACTTGTACCTTCCTCGTGTGGCGGGCTGCAGTATATCAGTGGCGATGGTTTACATCTGCGCTTGCGGGTCCAGGCTGAATCCAGCCCACAGCCGATTTCAGTGTTTAATCAAAGCTTGCAAGCCCAAGAATGTTGCACCTTTTATTGCCAGTCCTGTGGTGAAGTCACGATAAAGGACAGGAAACTCCTCAGGGTGCTCCCCCTGCCCAGTGAGAACTGGAGCGCTCTGGTCGGAGAGTGGTGCTGCCATCCCGACCCCTTTGCTAATAGGCCTCTTCATCCGAGAGAAAATGACTGTTTTATTGGGGACTCTTTCTTCTTAGTGAATTTGAAAAGTGATTTGGAGCAGGAACCAAAAGCAAATACCAAAGTCATTTGTAAGCGTTGCAAGGTAACGTTGGGAGAGACCATGTCATCAGAAACAACCAAATTTTACATGACAGAGGTAATTATCCGGCCATCTGAGGGAAGTTTTCCTAACATACCAAGGTCTCAGTTCCTTCAGAGCATTATTGCCCAGTGCCTGGTGGAGCTCTCCTCTGCTAGAAGTACTTTCAGATTCACGATTCAAGGTCAGGATGGCAAAGTGTACATCTTGCTCTGGGTTTTGAACTCAGACAGTTTGGTGATCGAACCTCTGAGAAGTTCCAGTTGTAGCAGGAAGTTCCCGCTGTTGGAAAGTTCCTTGGAAGCTGGCTCTGGCTCTGCCTGGAATGCCATCAAAGTCCTCTACCAGCCCTGTATCAAAAGCAGGAATAAAGATGGGCCAGATGAAGGAGGGATGCACCTGGACATTTCCATAACGCCCACCTCTCTTTTGGTGAGAACCCCTGACGGCTGCACCGAGATCCGACTTCCAGCAGGGGTCAGACTTGTACCTTCCTCGTGTGGCGGGCTGCAGTATATCAGTGGCGATGGTTTACATCTGCGCTTGCGGGTCCAGGCTGAATCCAGCCCACAGCCGATTTCAGTGTTTAATCAAAGCTTGCAAGCCCAAGAATGTTGCACCTTTTATTGCCAGTCCTGTGGTGAAGTCACGATAAAGGACAGGAAACTCCTCAGGGTGCTCCCCCTGCCCAGTGAGAACTGGAGCGCTCTGGTCGGAGAGTGGTGCTGCCATCCCGACCCCTTTGCTAATAGGCCTCTTCATCCGAGAGAAAATGACTGTTTTATTGGGGACTCTTTCTTCTTAGTGAATTTGAAAAGTGATTTGGAGCAGGAACCAAAAGCAAATACCAAAGTCATTTGTAAGCGTTGCAAGGTAACGTTGGGAGAGACCATGTCATCAGAAACAACCAAATTTTACATGACAGAGGTAATTATCCGGCCATCTGAGGGAAGTTTTCCTAACATACCAAGGTCTCAGTTCCTTCAGAGCATTATTGCCCAGTGCCTGGTGGAGCTCTCCTCTGCTAGAAGTACTTTCAGATTCACGATTCAAGGTCAGGATGGCAAAGTGTACATCTTGCTCTGGGTTTTGAACTCAGACAGTTTGGTGATCGAACCTCTGAGAAGTTCCAGTTGTAGCAGGAAGTTCCCGCTGTTGGAAAGTTCCTTGGAAGCTGGCTCTGGCTCTGCCTGGAATGCCATCAAAGTCCTCTACCAGCCCTGTATCAAAAGCAGGAATAAA
Peptide sequence:
MHLDISITPTSLLVRTPDGCTEIRLPAGVRLVPSSCGGLQYISGDGLHLRLRVQAESSPQPISVFNQSLQAQECCTFYCQSCGEVTIKDRKLLRVLPLPSENWSALVGEWCCHPDPFANRPLHPRENDCFIGDSFFLVNLKSDLEQEPKANTKVICKRCKVTLGETMSSETTKFYMTEVIIRPSEGSFPNIPRSQFLQSIIAQCLVELSSARSTFRFTIQGQDGKVYILLWVLNSDSLVIEPLRSSSCSRKFPLLESSLEAGSGSAWNAIKVLYQPCIKSRNKDGPDEGGMHLDISITPTSLLVRTPDGCTEIRLPAGVRLVPSSCGGLQYISGDGLHLRLRVQAESSPQPISVFNQSLQAQECCTFYCQSCGEVTIKDRKLLRVLPLPSENWSALVGEWCCHPDPFANRPLHPRENDCFIGDSFFLVNLKSDLEQEPKANTKVICKRCKVTLGETMSSETTKFYMTEVIIRPSEGSFPNIPRSQFLQSIIAQCLVELSSARSTFRFTIQGQDGKVYILLWVLNSDSLVIEPLRSSSCSRKFPLLESSLEAGSGSAWNAIKVLYQPCIKSRNK
IRESfinder result
IRESfinder score
0.556299167
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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