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mmu_circTrip12_943
Basic information of circular RNA
PanCircBase ID:
mmu_circTrip12_943
mm39_Chr. Position ID:
chr1|84735137|84739750|-
Gene name:
Trip12
Transcript:
ENSMUST00000027421.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
19,18,17,16,15,14
Exon/intron offsets:
0,305,1557,3346,3594,4447
Genomic length:
4613
Exon/intron sizes in nt:
1,19,22,91,54,15,71,18,000
Flanking exon/introns:
chr1:84732199-84735137|chr1:84739750-84739839
Splice length:
943
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AACTTACTGCAACAGGTTGCTTCCAAAGATCTACTTACAAATGTTCAACAATTGTTGGTAGTGACTCCACCGATTTTAAGTTCTGGGATGTTTATTATGGTGGTTCGCATGTTTTCTCTGATGTGTTCCAACTGTCCAACATTAGCTGTTCAACTTATGAAACAAAACATTGCAGAAACACTTCACTTCCTGCTATGTGGTGCCTCCAATGGAAGTTGTCAAGAGCAGATTGACCTTGTTCCACGAAGTCCTCAAGAGCTGTATGAGCTGACATCTTTGATTTGTGAACTTATGCCATGTTTACCAAAAGAAGGCATCTTCGCAGTTGATACCATGTTGAAAAAGGGAAATGCACAGAACACAGATGGTGCAATATGGCAGTGGCGGGATGACCGAGGCCTCTGGCATCCCTATAACAGGATTGACAGCCGGATCATTGAGGCAGCCCATCAGGTCGGTGAGGATGAGATAAGCTTGTCCACTCTGGGACGAGTTTATACTATTGATTTTAATTCTATGCAGCAAATCAATGAAGACACGGGAACAGCACGTGCCATTCAGAGAAAACCTAATCCCTTAGCCAATTCTAACACTAGTGGATATTCAGAGTTAAAGAAGGATGATGCTCGAGCACAGCTAATGAAAGAAGATCCGGAACTGGCTAAGTCTTTCATTAAGACCTTGTTTGGTGTTCTCTATGAAGTGTACAGCTCCTCAGCAGGCCCTGCGGTCAGACACAAGTGCCTTAGAGCAATTCTTAGGATAATTTATTTTGCTGATGCTGAACTTCTGAAGGATGTTCTGAAAAATCATGCTGTTTCAAGTCACATTGCTTCAATGCTATCCAGCCAAGACCTGAAGATAGTAGTTGGAGCTCTTCAGATGGCAGAAATCCTAATGCAAAAGTTACCTGATATTTTTAGTGTTTACTTCAGGAGAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGAGCTCTTCAGATGGCAG
59.46
AAATCGGTGGAGTCACTACC
56.95
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGAGCTCTTCAGATGGCAG
59.46
TCCCAGAACTTAAAATCGGTGGA
59.67
162
PCR template sequence:
TCCAGCCAAGACCTGAAGATAGTAGTTGGAGCTCTTCAGATGGCAGAAATCCTAATGCAAAAGTTACCTGATATTTTTAGTGTTTACTTCAGGAGAGAAGAACTTACTGCAACAGGTTGCTTCCAAAGATCTACTTACAAATGTTCAACAATTGTTGGTAGTGACTCCACCGATTTTAAGTTCTGGGATGTTTATTATGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-30c-5p(2), mmu-miR-30b-5p(2), mmu-miR-30e-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-30a-5p(1), mmu-miR-25-3p(1), mmu-miR-30d-5p(1), mmu-miR-153-3p(1), mmu-miR-370-3p(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCAGGAGAGAAGAACTTACTGCAAC
siRNA sets
TTGCAGTAAGTTCTTCTCT, GTTGCAGTAAGTTCTTCTC, GTAAGTTCTTCTCTCCTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRIP12_943_ORF_1
0.7295
0.020443345
0.98221701
1089
ORF sequence:
ATGTTTATTATGGTGGTTCGCATGTTTTCTCTGATGTGTTCCAACTGTCCAACATTAGCTGTTCAACTTATGAAACAAAACATTGCAGAAACACTTCACTTCCTGCTATGTGGTGCCTCCAATGGAAGTTGTCAAGAGCAGATTGACCTTGTTCCACGAAGTCCTCAAGAGCTGTATGAGCTGACATCTTTGATTTGTGAACTTATGCCATGTTTACCAAAAGAAGGCATCTTCGCAGTTGATACCATGTTGAAAAAGGGAAATGCACAGAACACAGATGGTGCAATATGGCAGTGGCGGGATGACCGAGGCCTCTGGCATCCCTATAACAGGATTGACAGCCGGATCATTGAGGCAGCCCATCAGGTCGGTGAGGATGAGATAAGCTTGTCCACTCTGGGACGAGTTTATACTATTGATTTTAATTCTATGCAGCAAATCAATGAAGACACGGGAACAGCACGTGCCATTCAGAGAAAACCTAATCCCTTAGCCAATTCTAACACTAGTGGATATTCAGAGTTAAAGAAGGATGATGCTCGAGCACAGCTAATGAAAGAAGATCCGGAACTGGCTAAGTCTTTCATTAAGACCTTGTTTGGTGTTCTCTATGAAGTGTACAGCTCCTCAGCAGGCCCTGCGGTCAGACACAAGTGCCTTAGAGCAATTCTTAGGATAATTTATTTTGCTGATGCTGAACTTCTGAAGGATGTTCTGAAAAATCATGCTGTTTCAAGTCACATTGCTTCAATGCTATCCAGCCAAGACCTGAAGATAGTAGTTGGAGCTCTTCAGATGGCAGAAATCCTAATGCAAAAGTTACCTGATATTTTTAGTGTTTACTTCAGGAGAGAAGAACTTACTGCAACAGGTTGCTTCCAAAGATCTACTTACAAATGTTCAACAATTGTTGGTAGTGACTCCACCGATTTTAAGTTCTGGGATGTTTATTATGGTGGTTCGCATGTTTTCTCTGATGTGTTCCAACTGTCCAACATTAGCTGTTCAACTTATGAAACAAAACATTGCAGAAACACTTCACTTCCTGCTATGTGGTGCCTCCAATGGAAGTTGTCAAGAGCAGATTGA
Peptide sequence:
MFIMVVRMFSLMCSNCPTLAVQLMKQNIAETLHFLLCGASNGSCQEQIDLVPRSPQELYELTSLICELMPCLPKEGIFAVDTMLKKGNAQNTDGAIWQWRDDRGLWHPYNRIDSRIIEAAHQVGEDEISLSTLGRVYTIDFNSMQQINEDTGTARAIQRKPNPLANSNTSGYSELKKDDARAQLMKEDPELAKSFIKTLFGVLYEVYSSSAGPAVRHKCLRAILRIIYFADAELLKDVLKNHAVSSHIASMLSSQDLKIVVGALQMAEILMQKLPDIFSVYFRREELTATGCFQRSTYKCSTIVGSDSTDFKFWDVYYGGSHVFSDVFQLSNISCSTYETKHCRNTSLPAMWCLQWKLSRAD
IRESfinder result
IRESfinder score
0.685366603
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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