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mmu_circGm29427_946
Basic information of circular RNA
PanCircBase ID:
mmu_circGm29427_946
mm39_Chr. Position ID:
chr1|130626415|130635342|-
Gene name:
Gm29427
Transcript:
ENSMUST00000188520.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
12,11,10,9,8,7,6,5,4
Exon/intron offsets:
0,2091,3026,3552,6698,7747,8164,8373,8830
Genomic length:
8927
Exon/intron sizes in nt:
65,105,147,208,125,57,75,67,97
Flanking exon/introns:
chr1:130605647-130626415|chr1:130635342-130635812
Splice length:
946
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TGTTTAATCTTGGGGTATATCGACGTGAAGCAGTCAAGTCCTATCAGTCTTATGATTTCTTTCGACATGACAATGAAGAGGCTATGAAGATCCGCAAACAGTGTGCTCTGGTGGCACTGGAAGATGTTAAAGCCTATTTTACTGAAGAGAGTGGGCAGATTGCGGTGTTTGATGCCACCAATACCACTCGGGAGAGGAGGGACATGATTTTGAACTTTGCCAAGCAGAATGCCTTCAAGGTATTTTTTGTAGAATCTGTCTGTGATGATCCTGATGTCATTGCTGCCAATATTCTGGAGGTAAAAGTGTCGAGCCCTGACTACCCCGAAAGGAATAGGGAGAATGTGATGGAGGACTTCCTGAAGAGAATTGAGTGCTACAAGGTCACTTACCAGCCCCTTGACCCAGACAACTATGATAAGGATCTTTCTTTCATAAAGGTGATAAATGTAGGCCAGAGATTCCTGGTCAACAGAGTTCAGGACTACATCCAGAGTAAGATTGTCTACTACCTGATGAATATCCACGTCCATCCTCGCACCATCTACCTTTGCCGGCACGGCGAGAGCGAGTTCAACCTTTTGGGGAAGATTGGGGGTGACTCTGGCCTCTCCGTGCGAGGAAAGCAGTTTGCTCATGCTCTGAAGAAGTTTCTGGAGGAACAGGAGATCCAGGACCTTAAAGTGTGGACGAGCCAGTTGAAGAGGACAATTCAGACTGCTGAGTCTCTTGGGGTGACCTATGAGCAGTGGAAGATCCTCAATGAGATTGATGCTGGCGTGTGTGAGGAGATGACATATTCAGAGATTGAGCAACGGTACCCAGAGGAATTTGCACTCCGAGATCAAGAGAAGTATCTGTACCGATACCCTGGTGGGGAGGTTGCAAAGTGGAAACAATTACTCTGAATGTGGATGCTGTAGACACACATCGTGACAAGCCAACT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGGAGGTTGCAAAGTGGAA
60.47
TGCGGATCTTCATAGCCTCT
58.29
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGGAGGTTGCAAAGTGGAA
60.47
GCGGATCTTCATAGCCTCTTCA
59.96
166
PCR template sequence:
AAGAGAAGTATCTGTACCGATACCCTGGTGGGGAGGTTGCAAAGTGGAAACAATTACTCTGAATGTGGATGCTGTAGACACACATCGTGACAAGCCAACTTGTTTAATCTTGGGGTATATCGACGTGAAGCAGTCAAGTCCTATCAGTCTTATGATTTCTTTCGACATGACAATGAAGAGGCTATGAAGATCCGCAAACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-326-3p(1), mmu-miR-149-5p(1), mmu-miR-182-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-3470b(1), mmu-miR-338-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGACAAGCCAACTTGTTTAATCTTGG
siRNA sets
CAAGATTAAACAAGTTGGC
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
0.551546471
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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