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mmu_circUbe3c_1743
Basic information of circular RNA
PanCircBase ID:
mmu_circUbe3c_1743
mm39_Chr. Position ID:
chr5|29792272|29824785|+
Gene name:
Ube3c
Transcript:
ENSMUST00000049453.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11,12,13
Exon/intron offsets:
0,2613,3535,9794,11584,13366,13857,14921,19632,27633,31953,32280
Genomic length:
32513
Exon/intron sizes in nt:
54,75,14,71,16,15,81,50,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr5:29774578-29792272|chr5:29824785-29836189
Splice length:
1743
Other database IDs:
CIRCpedia: MMU_CIRCpedia_15516, circAtlas: mmu-Ube3c_0023
circBase: hsa_circ_0083146, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_57390
Human Ortholog IDs:
Mature spliced Sequence:
GAAGAAAAGGCTTCTCTTTTACATCGCACTCAGGAAGAAAGACGCAAGAGAGAGGAAGAAAGGCGAAGATTGAAAAATGCAGTAATAATCCAATCTTTTATCCGAGGCTATAGAGACAGAAAACAACAATACTTCATCCAAAGAAGCGCGTTTGACCAATGCACTGACTCGGCTCAGCCTGGTGGTACCTTCTGCCTTGCTGATGGTCCCAACCTTACCCTCTTGGTAAGGCAGCTTCTGTTCTTTTACAAGCAGAGTGAAGACTCCAAACGTTTGATATGGCTTTATCAGAACTTAATTAAACACAGCTCTCTGTTTGTCAAGCAATTGGATGGATCAGAGAGACTGACATGCTTATTTCAAATAAAGAGGTTGATGAGCCTCTGTTGCAGGTTGCTGCAAAACTGTAGTGATGACAGTCTGAATGTTGCACTTCCAATGCGAATGCTTGAGGTGTTTACATCTGAGAATACATACTTGCCTGTTTTACAAGATTCTAGCTATGTGGTGTCAGTGATTGAACAAATTTTGCACTACATGGTTCACAGTGGATATTATAGATCTCTCTACTTGTTGATTAATAGCAAGCTTCCATCAAGTATTGAATATTCTGATTTATCTCGAGTTCCTATAGCAAAAATTTTGCTGGAGAATGTCCTAAAACCATTGCACTTTACGTATAGCTCCTGTCCTGAAGCCTCAAGGCATCAAGTTTTCTCAGCCTTCACAGAGGAGTTTCTGGGAGCACCTTTTACCGATCAAATTTTTCATTTCGTCATTCCGGCCTTTGCAGATGCACAAACTGTGTTCCCTTATGAGCCCTTTCTCAATGCATTGTTGTTACTTGAGAGTCAAAGTTCAAAACGGTGTAGTGGAGTGCCATGGCTCTTCTATTTTGTTTTAACTGTTGGCGAGAATTATTTAGGAGCACTCTCTGAGGATGGTCTACTGGTTTATCTGCGAGTGCTTCAGACCTTCCTCTCTCAGCTACCTGCTTCACCCACTGGTACAGGCTGTCCTGATTCCACCAGTGACTCTGAGGACGATAACGAGGAGACTGACCAACCCAACAGCCCTGAGGATGGCAGGGTGTCAGCCCCATATATTACTGAAGAGTGTCTGAGAAAACTGGATACGAAGCAGCAAACCAACACCCTGCTGAACCTGGTGTGGAGGGACTCGGCCAGTGAGGAGGTCTTCACAAGGATGGCTTCTATCTGCCACACATTGATGGTGCAGCACCGAATGATGGTGCCCAAAGTCAGGCTTCTCTACAGTTTAGCCTTCAATGCCAGGTTTTTGAGGCATCTTTGGTTTCTCATCTCTTCAATGACAACACAGATGATCACAGGATCTATGGTGCCATTGCTTCAGTTGATATCGCGGGGTTCGCCCATGTCTTTTGAAGATTCTAGTCGAATCATCCCACTCTTTTACCTCTTCAGCTCCTTGTTCAGTCATTCGCTGATCTCCATACATGACAATGAATTTTTTGGTGACCCCATAGAAGTTGTAGGTCAGAGACAATCATCCATGATGCCTTTCACTCTGGAGGAGTTAATCCTGCTGTCACGATGCCTTCGAGATGCCTGCTTGGGGATCATCAAGCTAGCATACCCGGAAACAAAGCCAGAAGTTCGGGAAGAATATGTCACCGCATTTCAGAGTATTGGGGTCACTACTAATTCTGAGATGCAGCAGTGCATACAAATGGAACAGAAGCGATGGGTTCAGCTGTTCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGTCACCGCATTTCAGAGT
57.52
GCGTCTTTCTTCCTGAGTGC
59.21
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCGCATTTCAGAGTATTGGGG
59.05
CCTTTCTTCCTCTCTCTTGCGT
60.03
152
PCR template sequence:
AGAATATGTCACCGCATTTCAGAGTATTGGGGTCACTACTAATTCTGAGATGCAGCAGTGCATACAAATGGAACAGAAGCGATGGGTTCAGCTGTTCAAGGAAGAAAAGGCTTCTCTTTTACATCGCACTCAGGAAGAAAGACGCAAGAGAGAGGAAGAAAGGCGAAGATTGAAAAATGCAGTAATAATCCAATCTTTTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
26
Interacting miRNAs (#binding sites)
mmu-miR-301b-3p(3), mmu-miR-301a-3p(3), mmu-miR-130a-3p(2), mmu-miR-181a-5p(1), mmu-miR-30e-5p(1), mmu-miR-26a-5p(1), mmu-miR-30a-5p(1), mmu-miR-19a-3p(1), mmu-miR-152-3p(1), mmu-miR-30c-5p(1), mmu-miR-18a-5p(1), mmu-miR-143-3p(1), mmu-miR-181b-5p(1), mmu-miR-30b-5p(1), mmu-miR-130b-3p(1), mmu-miR-192-5p(1), mmu-miR-183-5p(1), mmu-miR-215-5p(1), mmu-miR-690(1), mmu-miR-802-5p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-129-5p(1), mmu-miR-532-5p(1), mmu-miR-452-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAGCTGTTCAAGGAAGAAAAGGCTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUBE3C_1743_ORF_1
0.7082
0.073087681
0.999999993
3111
ORF sequence:
ATGAGCCTCTGTTGCAGGTTGCTGCAAAACTGTAGTGATGACAGTCTGAATGTTGCACTTCCAATGCGAATGCTTGAGGTGTTTACATCTGAGAATACATACTTGCCTGTTTTACAAGATTCTAGCTATGTGGTGTCAGTGATTGAACAAATTTTGCACTACATGGTTCACAGTGGATATTATAGATCTCTCTACTTGTTGATTAATAGCAAGCTTCCATCAAGTATTGAATATTCTGATTTATCTCGAGTTCCTATAGCAAAAATTTTGCTGGAGAATGTCCTAAAACCATTGCACTTTACGTATAGCTCCTGTCCTGAAGCCTCAAGGCATCAAGTTTTCTCAGCCTTCACAGAGGAGTTTCTGGGAGCACCTTTTACCGATCAAATTTTTCATTTCGTCATTCCGGCCTTTGCAGATGCACAAACTGTGTTCCCTTATGAGCCCTTTCTCAATGCATTGTTGTTACTTGAGAGTCAAAGTTCAAAACGGTGTAGTGGAGTGCCATGGCTCTTCTATTTTGTTTTAACTGTTGGCGAGAATTATTTAGGAGCACTCTCTGAGGATGGTCTACTGGTTTATCTGCGAGTGCTTCAGACCTTCCTCTCTCAGCTACCTGCTTCACCCACTGGTACAGGCTGTCCTGATTCCACCAGTGACTCTGAGGACGATAACGAGGAGACTGACCAACCCAACAGCCCTGAGGATGGCAGGGTGTCAGCCCCATATATTACTGAAGAGTGTCTGAGAAAACTGGATACGAAGCAGCAAACCAACACCCTGCTGAACCTGGTGTGGAGGGACTCGGCCAGTGAGGAGGTCTTCACAAGGATGGCTTCTATCTGCCACACATTGATGGTGCAGCACCGAATGATGGTGCCCAAAGTCAGGCTTCTCTACAGTTTAGCCTTCAATGCCAGGTTTTTGAGGCATCTTTGGTTTCTCATCTCTTCAATGACAACACAGATGATCACAGGATCTATGGTGCCATTGCTTCAGTTGATATCGCGGGGTTCGCCCATGTCTTTTGAAGATTCTAGTCGAATCATCCCACTCTTTTACCTCTTCAGCTCCTTGTTCAGTCATTCGCTGATCTCCATACATGACAATGAATTTTTTGGTGACCCCATAGAAGTTGTAGGTCAGAGACAATCATCCATGATGCCTTTCACTCTGGAGGAGTTAATCCTGCTGTCACGATGCCTTCGAGATGCCTGCTTGGGGATCATCAAGCTAGCATACCCGGAAACAAAGCCAGAAGTTCGGGAAGAATATGTCACCGCATTTCAGAGTATTGGGGTCACTACTAATTCTGAGATGCAGCAGTGCATACAAATGGAACAGAAGCGATGGGTTCAGCTGTTCAAGGAAGAAAAGGCTTCTCTTTTACATCGCACTCAGGAAGAAAGACGCAAGAGAGAGGAAGAAAGGCGAAGATTGAAAAATGCAGTAATAATCCAATCTTTTATCCGAGGCTATAGAGACAGAAAACAACAATACTTCATCCAAAGAAGCGCGTTTGACCAATGCACTGACTCGGCTCAGCCTGGTGGTACCTTCTGCCTTGCTGATGGTCCCAACCTTACCCTCTTGGTAAGGCAGCTTCTGTTCTTTTACAAGCAGAGTGAAGACTCCAAACGTTTGATATGGCTTTATCAGAACTTAATTAAACACAGCTCTCTGTTTGTCAAGCAATTGGATGGATCAGAGAGACTGACATGCTTATTTCAAATAAAGAGGTTGATGAGCCTCTGTTGCAGGTTGCTGCAAAACTGTAGTGATGACAGTCTGAATGTTGCACTTCCAATGCGAATGCTTGAGGTGTTTACATCTGAGAATACATACTTGCCTGTTTTACAAGATTCTAGCTATGTGGTGTCAGTGATTGAACAAATTTTGCACTACATGGTTCACAGTGGATATTATAGATCTCTCTACTTGTTGATTAATAGCAAGCTTCCATCAAGTATTGAATATTCTGATTTATCTCGAGTTCCTATAGCAAAAATTTTGCTGGAGAATGTCCTAAAACCATTGCACTTTACGTATAGCTCCTGTCCTGAAGCCTCAAGGCATCAAGTTTTCTCAGCCTTCACAGAGGAGTTTCTGGGAGCACCTTTTACCGATCAAATTTTTCATTTCGTCATTCCGGCCTTTGCAGATGCACAAACTGTGTTCCCTTATGAGCCCTTTCTCAATGCATTGTTGTTACTTGAGAGTCAAAGTTCAAAACGGTGTAGTGGAGTGCCATGGCTCTTCTATTTTGTTTTAACTGTTGGCGAGAATTATTTAGGAGCACTCTCTGAGGATGGTCTACTGGTTTATCTGCGAGTGCTTCAGACCTTCCTCTCTCAGCTACCTGCTTCACCCACTGGTACAGGCTGTCCTGATTCCACCAGTGACTCTGAGGACGATAACGAGGAGACTGACCAACCCAACAGCCCTGAGGATGGCAGGGTGTCAGCCCCATATATTACTGAAGAGTGTCTGAGAAAACTGGATACGAAGCAGCAAACCAACACCCTGCTGAACCTGGTGTGGAGGGACTCGGCCAGTGAGGAGGTCTTCACAAGGATGGCTTCTATCTGCCACACATTGATGGTGCAGCACCGAATGATGGTGCCCAAAGTCAGGCTTCTCTACAGTTTAGCCTTCAATGCCAGGTTTTTGAGGCATCTTTGGTTTCTCATCTCTTCAATGACAACACAGATGATCACAGGATCTATGGTGCCATTGCTTCAGTTGATATCGCGGGGTTCGCCCATGTCTTTTGAAGATTCTAGTCGAATCATCCCACTCTTTTACCTCTTCAGCTCCTTGTTCAGTCATTCGCTGATCTCCATACATGACAATGAATTTTTTGGTGACCCCATAGAAGTTGTAGGTCAGAGACAATCATCCATGATGCCTTTCACTCTGGAGGAGTTAATCCTGCTGTCACGATGCCTTCGAGATGCCTGCTTGGGGATCATCAAGCTAGCATACCCGGAAACAAAGCCAGAAGTTCGGGAAGAATATGTCACCGCATTTCAGAGTATTGGGGTCACTACTAATTCTGAGATGCAGCAGTGCATACAAATGGAACAGAAGCGATGGGTTCAGCTGTTCAAG
Peptide sequence:
MSLCCRLLQNCSDDSLNVALPMRMLEVFTSENTYLPVLQDSSYVVSVIEQILHYMVHSGYYRSLYLLINSKLPSSIEYSDLSRVPIAKILLENVLKPLHFTYSSCPEASRHQVFSAFTEEFLGAPFTDQIFHFVIPAFADAQTVFPYEPFLNALLLLESQSSKRCSGVPWLFYFVLTVGENYLGALSEDGLLVYLRVLQTFLSQLPASPTGTGCPDSTSDSEDDNEETDQPNSPEDGRVSAPYITEECLRKLDTKQQTNTLLNLVWRDSASEEVFTRMASICHTLMVQHRMMVPKVRLLYSLAFNARFLRHLWFLISSMTTQMITGSMVPLLQLISRGSPMSFEDSSRIIPLFYLFSSLFSHSLISIHDNEFFGDPIEVVGQRQSSMMPFTLEELILLSRCLRDACLGIIKLAYPETKPEVREEYVTAFQSIGVTTNSEMQQCIQMEQKRWVQLFKEEKASLLHRTQEERRKREEERRRLKNAVIIQSFIRGYRDRKQQYFIQRSAFDQCTDSAQPGGTFCLADGPNLTLLVRQLLFFYKQSEDSKRLIWLYQNLIKHSSLFVKQLDGSERLTCLFQIKRLMSLCCRLLQNCSDDSLNVALPMRMLEVFTSENTYLPVLQDSSYVVSVIEQILHYMVHSGYYRSLYLLINSKLPSSIEYSDLSRVPIAKILLENVLKPLHFTYSSCPEASRHQVFSAFTEEFLGAPFTDQIFHFVIPAFADAQTVFPYEPFLNALLLLESQSSKRCSGVPWLFYFVLTVGENYLGALSEDGLLVYLRVLQTFLSQLPASPTGTGCPDSTSDSEDDNEETDQPNSPEDGRVSAPYITEECLRKLDTKQQTNTLLNLVWRDSASEEVFTRMASICHTLMVQHRMMVPKVRLLYSLAFNARFLRHLWFLISSMTTQMITGSMVPLLQLISRGSPMSFEDSSRIIPLFYLFSSLFSHSLISIHDNEFFGDPIEVVGQRQSSMMPFTLEELILLSRCLRDACLGIIKLAYPETKPEVREEYVTAFQSIGVTTNSEMQQCIQMEQKRWVQLFK
IRESfinder result
IRESfinder score
0.700547061
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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