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mmu_circSlc24a2_1498
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc24a2_1498
mm39_Chr. Position ID:
chr4|86946482|87146200|-
Gene name:
Slc24a2
Transcript:
ENSMUST00000107157.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,3947,21638,44942,47873,198637
Genomic length:
199718
Exon/intron sizes in nt:
1,19,99,51,10,93,91,080
Flanking exon/introns:
chr4:86930009-86946482|chr4:87146200-87148552
Splice length:
1498
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGGAGCTATTTTCCCCGTGAAGAGTAAAGATCCCCAACTGTAGAAGTGCCCATAAGCATCATCGACTGGGAAGCAAGGAGCAGTATGCCAGAGCCATCTGTCTGAGTCTAAAGTGTGAAGACCACCATATCCACCAGAAAAGCAAGGATGGATCTCCACCAAAGCCCCACAGCCAGGCTCCTGCAGAAATGGTGTTCCCATGAGTCACCATTTGGCTGCAGGAGACATTATAATAGCAGGAAAAAACTGAAGCTAATTCGAGTCATTGGCCTTGTCATGGGCCTGGTAGCTGTGAGCACTGTCCCATTTTCAATCAGTGCCTTTACTGAGACAGACTCTCAGAGCAACAGAGGAGAAGCCAGTGATATGAGTGGCCCCAGAGTAGCACAGGGTCACCGTCAAAGAACTCTCTTAGACTTAAATGACAAGATTCGAGATTACACCCCACAGCCACCTGCTTCTCAGGAAGACCAAGCTGAGAACAGTACTGAGCACACCCAGGGAGACTACCCAAAGGACATCTTTTCCCTGGAGGAGCGAAGGAAAGGTGCCATCATTCTGCATGTCATTGGGATGATCTATATGTTCATAGCATTAGCCATCGTCTGTGATGAGTTCTTTGTTCCTTCTCTAACTGTCATCACTGAAAAACTGGGAATCTCTGATGATGTGGCTGGAGCCACCTTCATGGCTGCAGGCGGGTCAGCCCCAGAACTTTTCACGTCTCTTATAGGGGTCTTCATTGCTCACAGCAATGTCGGCATTGGCACCATCGTGGGTTCCGCCGTGTTCAATATTCTCTTTGTTATTGGCATGTGTGCTCTGTTTTCTAGAGAAATCCTAAACCTGACCTGGTGGCCGCTCTTTCGGGATGTGTCCTTCTACATCGTTGATTTGCTCATGTTGATCACATTTTTCCTGGATAACGTTATCATGTGGTGGGAAAGCTTACTCCTCTTAACAGCTTATTTCGCCTATGTGGTTTTCATGAAGTTCAACGTCCAAGTAGAGAGATGGGTGAAGCAAATGATATCTCGCAATAATGTTATCAAGGTGACAGTGCCAGAAGCCCAAGCAAAGTCACCTACAGCTGGGGACAAGGATGGGCCAACTTTACCGTCGAAGCCACGCCTCCAACGAGGCGGAAGCTCTGCCTCCCTCCACAACAGTCTCATGAGGAATAGCATCTTCCAGCTCATGATACACACCCTTGACCCACTCGCTGAAGAACTTGGATCATATGGAAAACTAAAATATTATGACACAATGACTGAAGAAGGGAGGTTCAGAGAAAAAGCTTCAATTCTCCACAAGATCGCCAAGAAGAAATGCCAAGTGGATGAGAATGAGAGGCAGAATGGGGCTGCCAATCATGTGGAAAAAATTGAACTCCCCAACAGCACAAGCACAGAGGTGGAAATGACGCCATCGAGCGAAGCTTCGGAACCCGTCCAGAATGGAAACCTCTCCCACAACATTGAAGCTGCAGATGCCCCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGAGGTGGAAATGACGCCA
60.32
GCTTCCCAGTCGATGATGCT
60.18
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAGGTGGAAATGACGCC
60.32
GCTTCCCAGTCGATGATGCT
60.18
165
PCR template sequence:
CAGCACAAGCACAGAGGTGGAAATGACGCCATCGAGCGAAGCTTCGGAACCCGTCCAGAATGGAAACCTCTCCCACAACATTGAAGCTGCAGATGCCCCGGTGGAGCTATTTTCCCCGTGAAGAGTAAAGATCCCCAACTGTAGAAGTGCCCATAAGCATCATCGACTGGGAAGCAAGGAGCAGTATGCCAGAGCCATCT
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-124-3p(1), mmu-miR-155-5p(1), mmu-miR-709(1), mmu-miR-326-3p(1), mmu-miR-433-5p(1), mmu-miR-362-5p(1), mmu-miR-680(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCAGATGCCCCGGTGGAGCTATTTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC24A2_1498_ORF_1
1.1421
0.19750482
0.999453748
1371
ORF sequence:
ATGGATCTCCACCAAAGCCCCACAGCCAGGCTCCTGCAGAAATGGTGTTCCCATGAGTCACCATTTGGCTGCAGGAGACATTATAATAGCAGGAAAAAACTGAAGCTAATTCGAGTCATTGGCCTTGTCATGGGCCTGGTAGCTGTGAGCACTGTCCCATTTTCAATCAGTGCCTTTACTGAGACAGACTCTCAGAGCAACAGAGGAGAAGCCAGTGATATGAGTGGCCCCAGAGTAGCACAGGGTCACCGTCAAAGAACTCTCTTAGACTTAAATGACAAGATTCGAGATTACACCCCACAGCCACCTGCTTCTCAGGAAGACCAAGCTGAGAACAGTACTGAGCACACCCAGGGAGACTACCCAAAGGACATCTTTTCCCTGGAGGAGCGAAGGAAAGGTGCCATCATTCTGCATGTCATTGGGATGATCTATATGTTCATAGCATTAGCCATCGTCTGTGATGAGTTCTTTGTTCCTTCTCTAACTGTCATCACTGAAAAACTGGGAATCTCTGATGATGTGGCTGGAGCCACCTTCATGGCTGCAGGCGGGTCAGCCCCAGAACTTTTCACGTCTCTTATAGGGGTCTTCATTGCTCACAGCAATGTCGGCATTGGCACCATCGTGGGTTCCGCCGTGTTCAATATTCTCTTTGTTATTGGCATGTGTGCTCTGTTTTCTAGAGAAATCCTAAACCTGACCTGGTGGCCGCTCTTTCGGGATGTGTCCTTCTACATCGTTGATTTGCTCATGTTGATCACATTTTTCCTGGATAACGTTATCATGTGGTGGGAAAGCTTACTCCTCTTAACAGCTTATTTCGCCTATGTGGTTTTCATGAAGTTCAACGTCCAAGTAGAGAGATGGGTGAAGCAAATGATATCTCGCAATAATGTTATCAAGGTGACAGTGCCAGAAGCCCAAGCAAAGTCACCTACAGCTGGGGACAAGGATGGGCCAACTTTACCGTCGAAGCCACGCCTCCAACGAGGCGGAAGCTCTGCCTCCCTCCACAACAGTCTCATGAGGAATAGCATCTTCCAGCTCATGATACACACCCTTGACCCACTCGCTGAAGAACTTGGATCATATGGAAAACTAAAATATTATGACACAATGACTGAAGAAGGGAGGTTCAGAGAAAAAGCTTCAATTCTCCACAAGATCGCCAAGAAGAAATGCCAAGTGGATGAGAATGAGAGGCAGAATGGGGCTGCCAATCATGTGGAAAAAATTGAACTCCCCAACAGCACAAGCACAGAGGTGGAAATGACGCCATCGAGCGAAGCTTCGGAACCCGTCCAGAATGGAAACCTCTCCCACAACATTGAAGCTGCAGATGCCCCGGTGGAGCTATTTTCCCCGTGA
Peptide sequence:
MDLHQSPTARLLQKWCSHESPFGCRRHYNSRKKLKLIRVIGLVMGLVAVSTVPFSISAFTETDSQSNRGEASDMSGPRVAQGHRQRTLLDLNDKIRDYTPQPPASQEDQAENSTEHTQGDYPKDIFSLEERRKGAIILHVIGMIYMFIALAIVCDEFFVPSLTVITEKLGISDDVAGATFMAAGGSAPELFTSLIGVFIAHSNVGIGTIVGSAVFNILFVIGMCALFSREILNLTWWPLFRDVSFYIVDLLMLITFFLDNVIMWWESLLLLTAYFAYVVFMKFNVQVERWVKQMISRNNVIKVTVPEAQAKSPTAGDKDGPTLPSKPRLQRGGSSASLHNSLMRNSIFQLMIHTLDPLAEELGSYGKLKYYDTMTEEGRFREKASILHKIAKKKCQVDENERQNGAANHVEKIELPNSTSTEVEMTPSSEASEPVQNGNLSHNIEAADAPVELFSP
IRESfinder result
IRESfinder score
0.55786601
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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