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mmu_circMyo1b_311
Basic information of circular RNA
PanCircBase ID:
mmu_circMyo1b_311
mm39_Chr. Position ID:
chr1|51852161|51873702|-
Gene name:
Myo1b
Transcript:
ENSMUST00000046390.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
7,6,5,4
Exon/intron offsets:
0,7138,11094,21446
Genomic length:
21541
Exon/intron sizes in nt:
64,47,105,95
Flanking exon/introns:
chr1:51840441-51852161|chr1:51873702-51902477
Splice length:
311
Other database IDs:
circBase: mmu_circ_0000036, CIRCpedia: MMU_CIRCpedia_22216, circAtlas: mmu-Myo1b_0009
circBase: hsa_circ_0118419, circAtlas: hsa-MYO1B_0001, CIRCpedia: HSA_CIRCpedia_38946
Human Ortholog IDs:
Mature spliced Sequence:
CTTTGCTTTGTCGGATGAAGCATACAGATCCCTCCGTGATCAAGATAAAGATCAATGCATTCTCATTACTGGGGAGAGTGGAGCAGGAAAAACAGAGGCCAGCAAGCTCGTCATGTCCTATGTCGCTGCCGTGTGCGGAAAAGGAGCAGAAGTCAATCAGGTCAAGGAACAGCTTCTGCAGTCCAACCCTGTCCTGGAAGCTTTTGGAAATGCCAAGACTGTGAGGAATGACAACTCATCTAGATTCGGCAAATACATGGATATTGAATTTGACTTTAAAGGCGATCCGCTGGGAGGAGTGATAAGTAACT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGACAACTCATCTAGATTCGGCA
59.55
TGCTCCACTCTCCCCAGTAA
59.88
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCAAGACTGTGAGGAATGAC
58.92
ATCACGGAGGGATCTGTATGC
59.38
140
PCR template sequence:
GCCAAGACTGTGAGGAATGACAACTCATCTAGATTCGGCAAATACATGGATATTGAATTTGACTTTAAAGGCGATCCGCTGGGAGGAGTGATAAGTAACTCTTTGCTTTGTCGGATGAAGCATACAGATCCCTCCGTGATCAAGATAAAGATCAATGCATTCTCATTACTGGGGAGAGTGGAGCAGGAAAAACAGAGGCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-33-5p(1), mmu-miR-1904(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGATAAGTAACTCTTTGCTTTGTCG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMYO1B_311_ORF_1
0.82
0.16297347
0.496517129
423
ORF sequence:
ATGTCCTATGTCGCTGCCGTGTGCGGAAAAGGAGCAGAAGTCAATCAGGTCAAGGAACAGCTTCTGCAGTCCAACCCTGTCCTGGAAGCTTTTGGAAATGCCAAGACTGTGAGGAATGACAACTCATCTAGATTCGGCAAATACATGGATATTGAATTTGACTTTAAAGGCGATCCGCTGGGAGGAGTGATAAGTAACTCTTTGCTTTGTCGGATGAAGCATACAGATCCCTCCGTGATCAAGATAAAGATCAATGCATTCTCATTACTGGGGAGAGTGGAGCAGGAAAAACAGAGGCCAGCAAGCTCGTCATGTCCTATGTCGCTGCCGTGTGCGGAAAAGGAGCAGAAGTCAATCAGGTCAAGGAACAGCTTCTGCAGTCCAACCCTGTCCTGGAAGCTTTTGGAAATGCCAAGACTGTGA
Peptide sequence:
MSYVAAVCGKGAEVNQVKEQLLQSNPVLEAFGNAKTVRNDNSSRFGKYMDIEFDFKGDPLGGVISNSLLCRMKHTDPSVIKIKINAFSLLGRVEQEKQRPASSSCPMSLPCAEKEQKSIRSRNSFCSPTLSWKLLEMPRL
IRESfinder result
IRESfinder score
0.280378337
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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