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mmu_circUnc5c_1400
Basic information of circular RNA
PanCircBase ID:
mmu_circUnc5c_1400
mm39_Chr. Position ID:
chr3|141492617|141523956|+
Gene name:
Unc5c
Transcript:
ENSMUST00000075282.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
8,9,10,11,12,13,14,15
Exon/intron offsets:
0,2014,2872,4935,14422,16863,29929,31174
Genomic length:
31339
Exon/intron sizes in nt:
57,192,345,88,169,234,150,165
Flanking exon/introns:
chr3:141476943-141492617|chr3:141523956-141533261
Splice length:
1400
Other database IDs:
circAtlas: hsa-UNC5C_0018
Human Ortholog IDs:
Mature spliced Sequence:
GATTCATTTACCCCATTTCAACTGAGCACAGACCCCAGAATGAATATGGATTTTCTTCTGCTCCTGACTCAGATGATGTGGCTCTCTACGTGGGGATTGTGATCGCTGTAACAGTCTGTCTGGCGATCACTGTTGTGGTGGCCCTGTTTGTGTATCGGAAGAACCACCGTGACTTTGAGTCTGACATCATTGACTCCTCAGCACTCAATGGCGGCTTTCAGCCTGTGAACATCAAGGCTGCCAGACAAGATCTCCTGGCTGTCCCCCCTGACCTCACCTCAGCTGCAGCCATGTACAGGGGACCTGTCTATGCTCTGCATGATGTCTCAGACAAAATCCCAATGACCAACTCTCCAATTCTGGACCCACTACCCAACTTGAAAATCAAAGTGTACAACAGCTCAGGTGCTGTCACTCCTCAGGATGACCTTGCCGAGTTCTCATCCAAACTGTCACCCCAGATGACCCAGTCCTTGCTAGAGAATGAGGCCCTTAACCTGAAGAACCAGAGCCTCGCAAGACAGACTGACCCATCCTGCACAGCATTTGGTACCTTCAACTCTCTTGGGGGTCACCTCATCATTCCTAATTCAGGAGTAAGCTTGCTGATTCCCGCTGGGGCCATTCCTCAGGGGAGAGTCTATGAAATGTATGTGACTGTACACAGGAAAGAAAATATGAGGCCCCCCATGGAAGACTCTCAGACCCTACTTACCCCTGTGGTGAGCTGTGGGCCTCCTGGAGCTCTGCTGACCCGCCCTGTCATCCTCACTCTGCATCACTGTGCAGACCCCAGCACCGAGGACTGGAAGATCCAGCTCAAAAACCAGGCAGTGCAGGGACAATGGGAGGATGTTGTGGTGGTTGGGGAGGAGAACTTCACAACCCCCTGTTACATTCAGCTGGATGCAGAGGCTTGCCATATCCTCACAGAGAACCTCAGTACCTATGCCCTGGTTGGGCAGTCCACCACCAAAGCAGCTGCCAAGCGTCTTAAACTGGCCATCTTTGGGCCCCTCTGCTGCTCTTCCCTGGAGTACAGCATTAGAGTCTACTGCCTGGATGACACACAGGATGCCCTGAAGGAAGTTCTACAACTGGAGAGGCAAATGGGAGGACAGCTCCTAGAAGAACCCAAGGCTCTTCATTTTAAAGGCAGCATCCACAACCTGCGCCTGTCTATTCATGACATCGCCCATTCCCTCTGGAAGAGCAAATTGCTGGCTAAGTATCAGGAAATTCCATTTTACCACATCTGGAGTGGCTCTCAAAGAAACCTCCACTGCACCTTCACTCTGGAAAGACTCAGCCTAAACACAGTGGAACTGGTTTGCAAACTCTGTGTGCGGCAGGTTGAAGGAGAAGGGCAGATCTTCCAGCTCAACTGTACTGTGTCAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCAGGTTGAAGGAGAAGGG
60.32
CCCACGTAGAGAGCCACATC
59.9
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCAGGTTGAAGGAGAAGGG
60.32
CAATCCCCACGTAGAGAGCC
59.89
152
PCR template sequence:
AAGACTCAGCCTAAACACAGTGGAACTGGTTTGCAAACTCTGTGTGCGGCAGGTTGAAGGAGAAGGGCAGATCTTCCAGCTCAACTGTACTGTGTCAGAGGATTCATTTACCCCATTTCAACTGAGCACAGACCCCAGAATGAATATGGATTTTCTTCTGCTCCTGACTCAGATGATGTGGCTCTCTACGTGGGGATTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-128-3p(1), mmu-miR-431-5p(1), mmu-miR-351-5p(1), mmu-miR-411-3p(1), mmu-miR-224-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TACTGTGTCAGAGGATTCATTTACCC
siRNA sets
TAAATGAATCCTCTGACAC, AAATGAATCCTCTGACACA, AATGAATCCTCTGACACAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUNC5C_1400_ORF_1
1.1918
0.213083732
0.998536106
1212
ORF sequence:
ATGTACAGGGGACCTGTCTATGCTCTGCATGATGTCTCAGACAAAATCCCAATGACCAACTCTCCAATTCTGGACCCACTACCCAACTTGAAAATCAAAGTGTACAACAGCTCAGGTGCTGTCACTCCTCAGGATGACCTTGCCGAGTTCTCATCCAAACTGTCACCCCAGATGACCCAGTCCTTGCTAGAGAATGAGGCCCTTAACCTGAAGAACCAGAGCCTCGCAAGACAGACTGACCCATCCTGCACAGCATTTGGTACCTTCAACTCTCTTGGGGGTCACCTCATCATTCCTAATTCAGGAGTAAGCTTGCTGATTCCCGCTGGGGCCATTCCTCAGGGGAGAGTCTATGAAATGTATGTGACTGTACACAGGAAAGAAAATATGAGGCCCCCCATGGAAGACTCTCAGACCCTACTTACCCCTGTGGTGAGCTGTGGGCCTCCTGGAGCTCTGCTGACCCGCCCTGTCATCCTCACTCTGCATCACTGTGCAGACCCCAGCACCGAGGACTGGAAGATCCAGCTCAAAAACCAGGCAGTGCAGGGACAATGGGAGGATGTTGTGGTGGTTGGGGAGGAGAACTTCACAACCCCCTGTTACATTCAGCTGGATGCAGAGGCTTGCCATATCCTCACAGAGAACCTCAGTACCTATGCCCTGGTTGGGCAGTCCACCACCAAAGCAGCTGCCAAGCGTCTTAAACTGGCCATCTTTGGGCCCCTCTGCTGCTCTTCCCTGGAGTACAGCATTAGAGTCTACTGCCTGGATGACACACAGGATGCCCTGAAGGAAGTTCTACAACTGGAGAGGCAAATGGGAGGACAGCTCCTAGAAGAACCCAAGGCTCTTCATTTTAAAGGCAGCATCCACAACCTGCGCCTGTCTATTCATGACATCGCCCATTCCCTCTGGAAGAGCAAATTGCTGGCTAAGTATCAGGAAATTCCATTTTACCACATCTGGAGTGGCTCTCAAAGAAACCTCCACTGCACCTTCACTCTGGAAAGACTCAGCCTAAACACAGTGGAACTGGTTTGCAAACTCTGTGTGCGGCAGGTTGAAGGAGAAGGGCAGATCTTCCAGCTCAACTGTACTGTGTCAGAGGATTCATTTACCCCATTTCAACTGAGCACAGACCCCAGAATGAATATGGATTTTCTTCTGCTCCTGACTCAGATGATGTGGCTCTCTACGTGGGGATTGTGA
Peptide sequence:
MYRGPVYALHDVSDKIPMTNSPILDPLPNLKIKVYNSSGAVTPQDDLAEFSSKLSPQMTQSLLENEALNLKNQSLARQTDPSCTAFGTFNSLGGHLIIPNSGVSLLIPAGAIPQGRVYEMYVTVHRKENMRPPMEDSQTLLTPVVSCGPPGALLTRPVILTLHHCADPSTEDWKIQLKNQAVQGQWEDVVVVGEENFTTPCYIQLDAEACHILTENLSTYALVGQSTTKAAAKRLKLAIFGPLCCSSLEYSIRVYCLDDTQDALKEVLQLERQMGGQLLEEPKALHFKGSIHNLRLSIHDIAHSLWKSKLLAKYQEIPFYHIWSGSQRNLHCTFTLERLSLNTVELVCKLCVRQVEGEGQIFQLNCTVSEDSFTPFQLSTDPRMNMDFLLLLTQMMWLSTWGL
IRESfinder result
IRESfinder score
0.618301307
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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