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mmu_circTrip12_1126
Basic information of circular RNA
PanCircBase ID:
mmu_circTrip12_1126
mm39_Chr. Position ID:
chr1|84714702|84722906|-
Gene name:
Trip12
Transcript:
ENSMUST00000027421.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
33,32,31,30,29,28,27,26
Exon/intron offsets:
0,1696,2532,5205,6112,6838,7696,8031
Genomic length:
8204
Exon/intron sizes in nt:
9,91,57,14,31,52,12,82,00,00,000
Flanking exon/introns:
chr1:84709848-84714702|chr1:84722906-84724898
Splice length:
1126
Other database IDs:
circAtlas: mmu-Trip12_0074
Human Ortholog IDs:
Mature spliced Sequence:
CTTTTCTCTCAACAGAGGATCACAAGCTTTAAAATTTTTCAACACACATCAGTTAAAATGTCAGTTACAAAGACACCCAGACTGTGCAAATGTGAAGCAGTGGAAAGGCGGGCCTGTCAAGATTGATCCCCTGGCTCTGGTGCAAGCTATTGAGAGATACCTTGTGGTTAGAGGATATGGAAGAGTAAGAGAAGATGATGAAGATAGTGATGATGATGGGTCAGATGAAGAAATAGATGAGTCTTTGGCTGCTCAATTCTTAAATTCGGGAAATGTAAGGCACAGGCTACAGTTTTATATTGGAGAACATTTACTACCATATAACATGACCGTGTATCAGGCAGTGCGGCAATTCAGTGTACAGGCTGAAGATGAAAGAGAATCTACTGATGATGAGAGCAATCCTCTGGGAAGAGCTGGAATTTGGACAAAGACTCATACAATATGGTACAAACCTGTGAGGGAGGATGAAGAAAGTACTAAAGATTGTGTTGGTGGCAAAAGGGGGAGAGCCCAAACAGCTCCAACAAAAACTTCCCCCAGAAATGCAAAGAAGCATGATGAGTTATGGCATGATGGAGTGTGCCCGTCAGTAGCAAATCCTTTAGAAGTTTACCTCATTCCCACACCACCTGAAAATATCACCTTTGAAGACCCATCCTTAGATGTAATACTTCTTTTAAGAGTTTTACATGCCATCAGTCGATATTGGTATTACTTGTATGATAATGCGATGTGCAAGGAGATTATTCCAACTAGTGAATTTATTAACAGTAAATTAACAGCAAAAGCAAATAGGCAGCTTCAAGACCCTCTAGTAATCATGACAGGAAACATCCCAACATGGCTCACTGAGCTAGGAAAAACCTGCCCATTTTTCTTTCCTTTTGATACCCGACAAATGCTTTTTTATGTAACTGCATTTGATCGGGACCGGGCAATGCAAAGATTACTTGATACCAACCCAGAAATCAACCAGTCTGATTCTCAAGACAGCAGAGTTGCGCCTAGATTGGATAGAAAAAAACGTACTGTGAACAGAGAGGAGCTACTGAAACAAGCTGAGTCTGTGATGCAGGACCTTGGCAGCTCTCGGGCCATGTTAGAAATCCAATATGAAAATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGAGTCTGTGATGCAGGA
59.75
TGCACAGTCTGGGTGTCTTT
59.45
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGAGTCTGTGATGCAGGA
59.75
TTGCACAGTCTGGGTGTCTT
59.45
155
PCR template sequence:
ACGTACTGTGAACAGAGAGGAGCTACTGAAACAAGCTGAGTCTGTGATGCAGGACCTTGGCAGCTCTCGGGCCATGTTAGAAATCCAATATGAAAATGAGCTTTTCTCTCAACAGAGGATCACAAGCTTTAAAATTTTTCAACACACATCAGTTAAAATGTCAGTTACAAAGACACCCAGACTGTGCAAATGTGAAGCAG
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-23b-3p(1), mmu-miR-27b-3p(1), mmu-miR-26a-5p(1), mmu-miR-23a-3p(1), mmu-miR-26b-5p(1), mmu-miR-541-5p(1), mmu-miR-384-3p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATATGAAAATGAGCTTTTCTCTCAAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRIP12_1126_ORF_1
0.8956
0.036233838
0.991188645
1137
ORF sequence:
ATGAAAATGAGCTTTTCTCTCAACAGAGGATCACAAGCTTTAAAATTTTTCAACACACATCAGTTAAAATGTCAGTTACAAAGACACCCAGACTGTGCAAATGTGAAGCAGTGGAAAGGCGGGCCTGTCAAGATTGATCCCCTGGCTCTGGTGCAAGCTATTGAGAGATACCTTGTGGTTAGAGGATATGGAAGAGTAAGAGAAGATGATGAAGATAGTGATGATGATGGGTCAGATGAAGAAATAGATGAGTCTTTGGCTGCTCAATTCTTAAATTCGGGAAATGTAAGGCACAGGCTACAGTTTTATATTGGAGAACATTTACTACCATATAACATGACCGTGTATCAGGCAGTGCGGCAATTCAGTGTACAGGCTGAAGATGAAAGAGAATCTACTGATGATGAGAGCAATCCTCTGGGAAGAGCTGGAATTTGGACAAAGACTCATACAATATGGTACAAACCTGTGAGGGAGGATGAAGAAAGTACTAAAGATTGTGTTGGTGGCAAAAGGGGGAGAGCCCAAACAGCTCCAACAAAAACTTCCCCCAGAAATGCAAAGAAGCATGATGAGTTATGGCATGATGGAGTGTGCCCGTCAGTAGCAAATCCTTTAGAAGTTTACCTCATTCCCACACCACCTGAAAATATCACCTTTGAAGACCCATCCTTAGATGTAATACTTCTTTTAAGAGTTTTACATGCCATCAGTCGATATTGGTATTACTTGTATGATAATGCGATGTGCAAGGAGATTATTCCAACTAGTGAATTTATTAACAGTAAATTAACAGCAAAAGCAAATAGGCAGCTTCAAGACCCTCTAGTAATCATGACAGGAAACATCCCAACATGGCTCACTGAGCTAGGAAAAACCTGCCCATTTTTCTTTCCTTTTGATACCCGACAAATGCTTTTTTATGTAACTGCATTTGATCGGGACCGGGCAATGCAAAGATTACTTGATACCAACCCAGAAATCAACCAGTCTGATTCTCAAGACAGCAGAGTTGCGCCTAGATTGGATAGAAAAAAACGTACTGTGAACAGAGAGGAGCTACTGAAACAAGCTGAGTCTGTGATGCAGGACCTTGGCAGCTCTCGGGCCATGTTAGAAATCCAATATGAAAATGAG
Peptide sequence:
MKMSFSLNRGSQALKFFNTHQLKCQLQRHPDCANVKQWKGGPVKIDPLALVQAIERYLVVRGYGRVREDDEDSDDDGSDEEIDESLAAQFLNSGNVRHRLQFYIGEHLLPYNMTVYQAVRQFSVQAEDERESTDDESNPLGRAGIWTKTHTIWYKPVREDEESTKDCVGGKRGRAQTAPTKTSPRNAKKHDELWHDGVCPSVANPLEVYLIPTPPENITFEDPSLDVILLLRVLHAISRYWYYLYDNAMCKEIIPTSEFINSKLTAKANRQLQDPLVIMTGNIPTWLTELGKTCPFFFPFDTRQMLFYVTAFDRDRAMQRLLDTNPEINQSDSQDSRVAPRLDRKKRTVNREELLKQAESVMQDLGSSRAMLEIQYENE
IRESfinder result
IRESfinder score
0.592282089
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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