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mmu_circUtrn_420
Basic information of circular RNA
PanCircBase ID:
mmu_circUtrn_420
mm39_Chr. Position ID:
chr10|12289679|12312136|-
Gene name:
Utrn
Transcript:
ENSMUST00000076817.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
68,67,66,65,64
Exon/intron offsets:
0,1245,1515,7661,22345
Genomic length:
22457
Exon/intron sizes in nt:
6,66,63,91,37,112
Flanking exon/introns:
chr10:12282338-12289679|chr10:12312136-12315370
Splice length:
420
Other database IDs:
circAtlas: mmu-Utrn_0049
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
ATACAGGAGCCTAAAGCATTTTAATTATGATGTCTGCCAGAGTTGCTTCTTTTCTGGAAGAACAGCAAAGGGCCACAAGTTACATTACCCGATGGTAGAATACTGCATACCGACAACATCTGGGGAAGATGTGAGAGATTTCACTAAGGTGCTGAAGAACAAGTTCAGGTCCAAGAAATATTTTGCCAAACATCCTCGGCTTGGCTACCTGCCTGTCCAGACCGTGCTGGAAGGGGACAACTTAGAAACTCCTATCACGCTCATCAGTATGTGGCCAGAGCACTATGACCCCTCCCAGTCCCCTCAGCTGTTTCATGATGACACCCACTCAAGAATAGAGCAATACGCTACACGACTGGCCCAGATGGAAAGGACAAACGGGTCCTTCCTAACTGATAGCAGCTCTACAACAGGAAGCGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCCAGATGGAAAGGACAA
59.96
CTTGTGGCCCTTTGCTGTTC
59.97
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTACACGACTGGCCCAGATG
60.18
CTTGTGGCCCTTTGCTGTTC
59.97
152
PCR template sequence:
ACACCCACTCAAGAATAGAGCAATACGCTACACGACTGGCCCAGATGGAAAGGACAAACGGGTCCTTCCTAACTGATAGCAGCTCTACAACAGGAAGCGTATACAGGAGCCTAAAGCATTTTAATTATGATGTCTGCCAGAGTTGCTTCTTTTCTGGAAGAACAGCAAAGGGCCACAAGTTACATTACCCGATGGTAGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-328-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAACAGGAAGCGTATACAGGAGCCTA
siRNA sets
CTCCTGTATACGCTTCCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUTRN_420_ORF_1
0.6893
0.199843208
0.902625299
747
ORF sequence:
ATGGTAGAATACTGCATACCGACAACATCTGGGGAAGATGTGAGAGATTTCACTAAGGTGCTGAAGAACAAGTTCAGGTCCAAGAAATATTTTGCCAAACATCCTCGGCTTGGCTACCTGCCTGTCCAGACCGTGCTGGAAGGGGACAACTTAGAAACTCCTATCACGCTCATCAGTATGTGGCCAGAGCACTATGACCCCTCCCAGTCCCCTCAGCTGTTTCATGATGACACCCACTCAAGAATAGAGCAATACGCTACACGACTGGCCCAGATGGAAAGGACAAACGGGTCCTTCCTAACTGATAGCAGCTCTACAACAGGAAGCGTATACAGGAGCCTAAAGCATTTTAATTATGATGTCTGCCAGAGTTGCTTCTTTTCTGGAAGAACAGCAAAGGGCCACAAGTTACATTACCCGATGGTAGAATACTGCATACCGACAACATCTGGGGAAGATGTGAGAGATTTCACTAAGGTGCTGAAGAACAAGTTCAGGTCCAAGAAATATTTTGCCAAACATCCTCGGCTTGGCTACCTGCCTGTCCAGACCGTGCTGGAAGGGGACAACTTAGAAACTCCTATCACGCTCATCAGTATGTGGCCAGAGCACTATGACCCCTCCCAGTCCCCTCAGCTGTTTCATGATGACACCCACTCAAGAATAGAGCAATACGCTACACGACTGGCCCAGATGGAAAGGACAAACGGGTCCTTCCTAACTGATAGCAGCTCTACAACAGGAAGC
Peptide sequence:
MVEYCIPTTSGEDVRDFTKVLKNKFRSKKYFAKHPRLGYLPVQTVLEGDNLETPITLISMWPEHYDPSQSPQLFHDDTHSRIEQYATRLAQMERTNGSFLTDSSSTTGSVYRSLKHFNYDVCQSCFFSGRTAKGHKLHYPMVEYCIPTTSGEDVRDFTKVLKNKFRSKKYFAKHPRLGYLPVQTVLEGDNLETPITLISMWPEHYDPSQSPQLFHDDTHSRIEQYATRLAQMERTNGSFLTDSSSTTGS
IRESfinder result
IRESfinder score
0.495237744
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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