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mmu_circTpp2_645
Basic information of circular RNA
PanCircBase ID:
mmu_circTpp2_645
mm39_Chr. Position ID:
chr1|43988471|43995785|+
Gene name:
Tpp2
Transcript:
ENSMUST00000087933.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
3,4,5,6,7
Exon/intron offsets:
0,1795,3945,5265,7159
Genomic length:
7314
Exon/intron sizes in nt:
9,61,05,12,51,64,155
Flanking exon/introns:
chr1:43979398-43988471|chr1:43995785-43996595
Splice length:
645
Other database IDs:
circAtlas: mmu-Tpp2_0032
Human Ortholog IDs:
Mature spliced Sequence:
ATTCCTGCAAACTGGACAAATCCTTTAGGAAAATATCATATTGGCATTAAAAATGGTTATGACTTCTATCCAAAGGCTCTCAAGGAAAGGATACAGAAAGAACGGAAGGAAAAAATCTGGGATCCAATTCACAGAGTTGCACTTGCAGAAGCTTGTAGAAAACAAGAAGAATTTGATATTGCCAACAATGGCTCTTCCCAAGCCAATAAACTAATCAAGGAAGAGTTGCAAAGTCAAGTGGAATTACTTAATTCTTTTGAGAAAAAGTATAGTGATCCAGGCCCTGTATATGACTGCTTGGTGTGGCATGATGGTGAGACCTGGAGAGCCTGTGTTGATTCAAATGAGAATGGGGACTTGAGTAAATGTGCCGTATTGAGAAACTACAAAGAGGCCCAAGAGTACAGTTCTTTTGGCACAGCTGAGATGCTGAATTACTCTGTGAACATTTATGACGATGGGAACCTGCTCTCCATTGTGACCAGCGGAGGAGCTCATGGAACCCATGTAGCAAGTATAGCCGCAGGGCATTTTCCAGAAGAGCCTGAACGGAATGGAGTTGCTCCTGGTGCTCAAATTCTATCCATTAAGATTGGTGATACACGGCTAAGCACTATGGAAACAGGCACAGGCCTCATCAGAGCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTTGCTCCTGGTGCTCAAA
59.82
CCTTTCCTTGAGAGCCTTTGG
58.83
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTTGCTCCTGGTGCTCAAA
59.82
CCTTTCCTTGAGAGCCTTTGGA
60.22
178
PCR template sequence:
TGAACGGAATGGAGTTGCTCCTGGTGCTCAAATTCTATCCATTAAGATTGGTGATACACGGCTAAGCACTATGGAAACAGGCACAGGCCTCATCAGAGCTATTCCTGCAAACTGGACAAATCCTTTAGGAAAATATCATATTGGCATTAAAAATGGTTATGACTTCTATCCAAAGGCTCTCAAGGAAAGGATACAGAAAG
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-155-5p(1), mmu-miR-221-3p(1), mmu-miR-146a-5p(1), mmu-miR-130a-3p(1), mmu-miR-222-3p(1), mmu-miR-136-5p(1), mmu-miR-182-5p(1), mmu-miR-300-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTCATCAGAGCTATTCCTGCAAACT
siRNA sets
AGTTTGCAGGAATAGCTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTPP2_645_ORF_1
1.0681
0.120284318
0.968923307
864
ORF sequence:
ATGCTGAATTACTCTGTGAACATTTATGACGATGGGAACCTGCTCTCCATTGTGACCAGCGGAGGAGCTCATGGAACCCATGTAGCAAGTATAGCCGCAGGGCATTTTCCAGAAGAGCCTGAACGGAATGGAGTTGCTCCTGGTGCTCAAATTCTATCCATTAAGATTGGTGATACACGGCTAAGCACTATGGAAACAGGCACAGGCCTCATCAGAGCTATTCCTGCAAACTGGACAAATCCTTTAGGAAAATATCATATTGGCATTAAAAATGGTTATGACTTCTATCCAAAGGCTCTCAAGGAAAGGATACAGAAAGAACGGAAGGAAAAAATCTGGGATCCAATTCACAGAGTTGCACTTGCAGAAGCTTGTAGAAAACAAGAAGAATTTGATATTGCCAACAATGGCTCTTCCCAAGCCAATAAACTAATCAAGGAAGAGTTGCAAAGTCAAGTGGAATTACTTAATTCTTTTGAGAAAAAGTATAGTGATCCAGGCCCTGTATATGACTGCTTGGTGTGGCATGATGGTGAGACCTGGAGAGCCTGTGTTGATTCAAATGAGAATGGGGACTTGAGTAAATGTGCCGTATTGAGAAACTACAAAGAGGCCCAAGAGTACAGTTCTTTTGGCACAGCTGAGATGCTGAATTACTCTGTGAACATTTATGACGATGGGAACCTGCTCTCCATTGTGACCAGCGGAGGAGCTCATGGAACCCATGTAGCAAGTATAGCCGCAGGGCATTTTCCAGAAGAGCCTGAACGGAATGGAGTTGCTCCTGGTGCTCAAATTCTATCCATTAAGATTGGTGATACACGGCTAAGCACTATGGAAACAGGCACAGGCCTCATCAGAGCT
Peptide sequence:
MLNYSVNIYDDGNLLSIVTSGGAHGTHVASIAAGHFPEEPERNGVAPGAQILSIKIGDTRLSTMETGTGLIRAIPANWTNPLGKYHIGIKNGYDFYPKALKERIQKERKEKIWDPIHRVALAEACRKQEEFDIANNGSSQANKLIKEELQSQVELLNSFEKKYSDPGPVYDCLVWHDGETWRACVDSNENGDLSKCAVLRNYKEAQEYSSFGTAEMLNYSVNIYDDGNLLSIVTSGGAHGTHVASIAAGHFPEEPERNGVAPGAQILSIKIGDTRLSTMETGTGLIRA
IRESfinder result
IRESfinder score
0.560636657
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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