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mmu_circTom1l2_878
Basic information of circular RNA
PanCircBase ID:
mmu_circTom1l2_878
mm39_Chr. Position ID:
chr11|60146756|60171109|-
Gene name:
Tom1l2
Transcript:
ENSMUST00000142225.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
8,7,6,5,4,3,2
Exon/intron offsets:
0,2925,5124,6718,14387,18993,24268
Genomic length:
24353
Exon/intron sizes in nt:
153,117,159,135,150,79,85
Flanking exon/introns:
chr11:60145642-60146756|chr11:60171109-60243582
Splice length:
878
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AGAAGGCAACAGATGGCTCCCTGCAGAGCGAGGACTGGACACTGAATATGGAGATCTGTGACATCATCAACGAGACAGAGGAAGGGCCAAAGGATGCCATCCGGGCTCTAAAGAAGCGGCTTAGTGGGAACCGAAACTACAGAGAAGTGATGTTGGCCCTGACGGTGCTGGAGACTTGTGTGAAGAACTGTGGCCACCGCTTTCATCTCCTCGTGGCCAACCGAGACTTCATCGACAGCGTTCTGGTCAAAATTATCTCTCCCAAGAATAACCCTCCCACTATCGTCCAGGACAAAGTGCTGGCTCTAATTCAGGCATGGGCAGATGCCTTTAGGAGCAGTCCTGACCTCACAGGTGTTGTGCACATATATGAAGAACTGAAGAGGAGGGGGATTGAGTTCCCCATGGCGGACTTGGACGCCCTGTCTCCTATCCACACACCCCAGCGGAGTGTCCCAGAAATGGATCCAGCTGCCACCATTCCCAGGTCCCAGACACAGCCCAGGACAACCGCTGGCACCTATTCCTCACCTCCTCCAGCTTCCTACTCTACTCTGCAGGCCCCGGCTCTGAGTGTGACGGGCCCCATCACAGCCAATTCAGAACAGATTGCCAGGCTGCGCAGTGAGCTGGACATTGTTCGGGGAAACACAAAAGTCATGTCTGAGATGTTAACAGAAATGGTCCCTGGGCAGGAGGATTCTTCTGATCTGGAACTACTACAGGTCTTCCAGGTGTGTCCTTCCACAGCCCATGAGAGCAACAGGGAAACTTGTGAACTACTTGTCTGGAGATTCCTGGAAAAGTGACTTGTACCTGAGGAAAGGCCAAGACCAATAACACGTAGTGCTGTCAGCTTTGCTGGAGGCCCCAAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGAGGAAAGGCCAAGACC
60.32
CCTTTGGCCCTTCCTCTGTC
60.32
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGAGGAAAGGCCAAGACC
60.32
GCCCTTCCTCTGTCTCGTTG
60.39
150
PCR template sequence:
ACTACTTGTCTGGAGATTCCTGGAAAAGTGACTTGTACCTGAGGAAAGGCCAAGACCAATAACACGTAGTGCTGTCAGCTTTGCTGGAGGCCCCAAGGAGAGAAGGCAACAGATGGCTCCCTGCAGAGCGAGGACTGGACACTGAATATGGAGATCTGTGACATCATCAACGAGACAGAGGAAGGGCCAAAGGATGCCAT
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-7b-5p(1), mmu-miR-328-3p(1), mmu-miR-7a-5p(1), mmu-miR-143-3p(1), mmu-miR-383-5p(1), mmu-miR-680(1)
siRNAs for circular RNA silencing
Junction sequence
AGGCCCCAAGGAGAGAAGGCAACAGA
siRNA sets
GTTGCCTTCTCTCCTTGGG, TTGCCTTCTCTCCTTGGGG, TGTTGCCTTCTCTCCTTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.430196111
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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