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mmu_circUckl1_793
Basic information of circular RNA
PanCircBase ID:
mmu_circUckl1_793
mm39_Chr. Position ID:
chr2|181214866|181216830|-
Gene name:
Uckl1
Transcript:
ENSMUST00000057816.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,141,1138,1295,1577,1773
Genomic length:
1964
Exon/intron sizes in nt:
6,21,90,72,17,11,07,190
Flanking exon/introns:
chr2:181214279-181214866|chr2:181216830-181223648
Splice length:
793
Other database IDs:
CIRCpedia: MMU_CIRCpedia_219746, circAtlas: mmu-Uckl1_0007
circBase: hsa_circ_0061192
Human Ortholog IDs:
Mature spliced Sequence:
CAGCAATGCAGGGACCTTGGACAGACTTCTCCCACCAGTGGGTACTGGGCGCTCACCCCGGAAGCGCACCACCAGCCAGTGCAAGTCAGAACCACCCCTGCTTCGCACAAGCAAACGTACCATCTACACAGCTGGGCGGCCACCATGGTACAATGAACATGGTACACAGTCCAAGGAGGCCTTTGCTATTGGCTTAGGAGGTGGCAGTGCATCTGGGAAGACCACTGTGGCCAGAATGATCATTGAGGCACTAGATGTGCCCTGGGTGGTCCTGTTGTCCATGGACTCCTTCTATAAGGTTCTGACGCAGCAGCAGCAGGAACAGGCTGCCTGTAACAATTTCAACTTTGACCACCCTGATGCCTTTGACTTCGATCTCATCATTTCCACCCTTAAGAAGCTAAAACAGGGCAGGAGTGTCCAAGTGCCCATCTATGATTTCACTACCCATAGCCGGAAAAAGGACTGGAAAACCCTGTATGGTGCGAATGTCATCATCTTTGAGGGTATCATGGCCTTTGCTGATAAGACACTGCTGGAGCTCCTGGACATGAAGATCTTTGTGGACACGGACTCTGATATCCGACTGGTTCGGCGTCTGCGCAGGGACATCAGCGAACGAGGCCGGGACATTGAGGGTGTCATTAAGCAGTACAACAAGTTTGTCAAACCTGCATTTGATCAGTATATCCAGCCTACCATGCGGCTGGCAGATATTGTGGTGCCCAGAGGGAGCGGGAACACAGTAGCCATTGACCTGATTGTGCAGCATGTTCACAGCCAGCTGGAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCGGGAACACAGTAGCCATT
60.68
GGGTGGTTCTGACTTGCACT
60.18
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGGCAGATATTGTGGTGC
59.62
TTCTGACTTGCACTGGCTGG
60.54
179
PCR template sequence:
GCCTACCATGCGGCTGGCAGATATTGTGGTGCCCAGAGGGAGCGGGAACACAGTAGCCATTGACCTGATTGTGCAGCATGTTCACAGCCAGCTGGAAGAGCAGCAATGCAGGGACCTTGGACAGACTTCTCCCACCAGTGGGTACTGGGCGCTCACCCCGGAAGCGCACCACCAGCCAGTGCAAGTCAGAACCACCCCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-137-3p(1), mmu-miR-140-5p(1), mmu-miR-34a-5p(1), mmu-miR-326-3p(1), mmu-miR-138-5p(1), mmu-miR-370-3p(1), mmu-miR-425-5p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCAGCTGGAAGAGCAGCAATGCAGGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUCKL1_793_ORF_1
1.1286
0.421783379
0.988244666
816
ORF sequence:
ATGTTCACAGCCAGCTGGAAGAGCAGCAATGCAGGGACCTTGGACAGACTTCTCCCACCAGTGGGTACTGGGCGCTCACCCCGGAAGCGCACCACCAGCCAGTGCAAGTCAGAACCACCCCTGCTTCGCACAAGCAAACGTACCATCTACACAGCTGGGCGGCCACCATGGTACAATGAACATGGTACACAGTCCAAGGAGGCCTTTGCTATTGGCTTAGGAGGTGGCAGTGCATCTGGGAAGACCACTGTGGCCAGAATGATCATTGAGGCACTAGATGTGCCCTGGGTGGTCCTGTTGTCCATGGACTCCTTCTATAAGGTTCTGACGCAGCAGCAGCAGGAACAGGCTGCCTGTAACAATTTCAACTTTGACCACCCTGATGCCTTTGACTTCGATCTCATCATTTCCACCCTTAAGAAGCTAAAACAGGGCAGGAGTGTCCAAGTGCCCATCTATGATTTCACTACCCATAGCCGGAAAAAGGACTGGAAAACCCTGTATGGTGCGAATGTCATCATCTTTGAGGGTATCATGGCCTTTGCTGATAAGACACTGCTGGAGCTCCTGGACATGAAGATCTTTGTGGACACGGACTCTGATATCCGACTGGTTCGGCGTCTGCGCAGGGACATCAGCGAACGAGGCCGGGACATTGAGGGTGTCATTAAGCAGTACAACAAGTTTGTCAAACCTGCATTTGATCAGTATATCCAGCCTACCATGCGGCTGGCAGATATTGTGGTGCCCAGAGGGAGCGGGAACACAGTAGCCATTGACCTGATTGTGCAGCATGTTCACAGCCAGCTGGAAGAG
Peptide sequence:
MFTASWKSSNAGTLDRLLPPVGTGRSPRKRTTSQCKSEPPLLRTSKRTIYTAGRPPWYNEHGTQSKEAFAIGLGGGSASGKTTVARMIIEALDVPWVVLLSMDSFYKVLTQQQQEQAACNNFNFDHPDAFDFDLIISTLKKLKQGRSVQVPIYDFTTHSRKKDWKTLYGANVIIFEGIMAFADKTLLELLDMKIFVDTDSDIRLVRRLRRDISERGRDIEGVIKQYNKFVKPAFDQYIQPTMRLADIVVPRGSGNTVAIDLIVQHVHSQLEE
IRESfinder result
IRESfinder score
0.537623628
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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