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mmu_circMyo1d_824
Basic information of circular RNA
PanCircBase ID:
mmu_circMyo1d_824
mm39_Chr. Position ID:
chr11|80557400|80567764|-
Gene name:
Myo1d
Transcript:
ENSMUST00000041065.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
12,11,10,9,8,7
Exon/intron offsets:
0,4274,8039,8242,9476,10247
Genomic length:
10364
Exon/intron sizes in nt:
71,17,11,15,14,62,04,100
Flanking exon/introns:
chr11:80553941-80557400|chr11:80567764-80570845
Splice length:
824
Other database IDs:
circAtlas: mmu-Myo1d_0035
CIRCpedia: HSA_CIRCpedia_352299
Human Ortholog IDs:
Mature spliced Sequence:
TCTTCCATCAATGACGCTGCTGAGTTCAAAGTTGTAGCTGATGCCATGAAAGTAATTGGATTCAAACCTGAGGAGATTCAAACTGTGTATAAAATTTTGGCTGTTATTCTTCACTTGGGAAATTTAAAATTTATAGTAGATGGTGACACGCCGCTTATTGAGAATGGCAAGGTTGTGTCTGTCATAGCAGAATTGCTGTCTACTAAGGCAGACATGGTGGAGAAAGCCCTGCTTTACCGGACGGTGGCCACAGGCCGTGACATCATCGACAAACAGCACACGGAACAGGAGGCCAGCTACGGCAGAGACGCCTTTGCCAAGGCAATATATGAGCGCCTCTTTTGTTGGATTGTTACTCGCATCAATGACATCATCGAGGTCAAGAACTATGACACCACGATACATGGGAAAAACACGGTTATTGGTGTCTTGGATATCTATGGCTTTGAAATCTTTGACAACAACAGCTTTGAGCAGTTCTGCATTAACTACTGCAACGAGAAACTGCAGCAGCTCTTCATTCAGCTGGTGCTGAAGCAGGAGCAAGAGGAGTACCAGCGGGAGGGCATCCCTTGGAAACACATTGATTACTTCAACAACCAGATCATTGTGGACCTCGTGGAGCAGCAGCACAAAGGCATCATTGCAATCCTGGATGACGCGTGTATGAATGTTGGCAAAGTCACTGACGGAATGTTCCTTGAGGCCCTTAACAGTAAATTGGGCAAACATGGTCATTTTTCCAGCCGAAAGACCTGTGCCTCAGACAAAATCCTGGAGTTTGATCGGGACTTTCGAATCCGTCATTATGCGGGTGACGTGGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCAGCCGAAAGACCTGTG
60.25
ACACAGTTTGAATCTCCTCAGGT
59.61
172
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGAAAGACCTGTGCCTCAGA
59.68
ACACAGTTTGAATCTCCTCAGGT
59.61
165
PCR template sequence:
GCAAACATGGTCATTTTTCCAGCCGAAAGACCTGTGCCTCAGACAAAATCCTGGAGTTTGATCGGGACTTTCGAATCCGTCATTATGCGGGTGACGTGGTTCTTCCATCAATGACGCTGCTGAGTTCAAAGTTGTAGCTGATGCCATGAAAGTAATTGGATTCAAACCTGAGGAGATTCAAACTGTGTATAAAATTTTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-181a-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-320-3p(1), mmu-miR-181b-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-1198-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CGGGTGACGTGGTTCTTCCATCAATG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMYO1D_824_ORF_1
1.2738
0.380149556
0.989334177
816
ORF sequence:
ATGAAAGTAATTGGATTCAAACCTGAGGAGATTCAAACTGTGTATAAAATTTTGGCTGTTATTCTTCACTTGGGAAATTTAAAATTTATAGTAGATGGTGACACGCCGCTTATTGAGAATGGCAAGGTTGTGTCTGTCATAGCAGAATTGCTGTCTACTAAGGCAGACATGGTGGAGAAAGCCCTGCTTTACCGGACGGTGGCCACAGGCCGTGACATCATCGACAAACAGCACACGGAACAGGAGGCCAGCTACGGCAGAGACGCCTTTGCCAAGGCAATATATGAGCGCCTCTTTTGTTGGATTGTTACTCGCATCAATGACATCATCGAGGTCAAGAACTATGACACCACGATACATGGGAAAAACACGGTTATTGGTGTCTTGGATATCTATGGCTTTGAAATCTTTGACAACAACAGCTTTGAGCAGTTCTGCATTAACTACTGCAACGAGAAACTGCAGCAGCTCTTCATTCAGCTGGTGCTGAAGCAGGAGCAAGAGGAGTACCAGCGGGAGGGCATCCCTTGGAAACACATTGATTACTTCAACAACCAGATCATTGTGGACCTCGTGGAGCAGCAGCACAAAGGCATCATTGCAATCCTGGATGACGCGTGTATGAATGTTGGCAAAGTCACTGACGGAATGTTCCTTGAGGCCCTTAACAGTAAATTGGGCAAACATGGTCATTTTTCCAGCCGAAAGACCTGTGCCTCAGACAAAATCCTGGAGTTTGATCGGGACTTTCGAATCCGTCATTATGCGGGTGACGTGGTTCTTCCATCAATGACGCTGCTGAGTTCAAAGTTGTAG
Peptide sequence:
MKVIGFKPEEIQTVYKILAVILHLGNLKFIVDGDTPLIENGKVVSVIAELLSTKADMVEKALLYRTVATGRDIIDKQHTEQEASYGRDAFAKAIYERLFCWIVTRINDIIEVKNYDTTIHGKNTVIGVLDIYGFEIFDNNSFEQFCINYCNEKLQQLFIQLVLKQEQEEYQREGIPWKHIDYFNNQIIVDLVEQQHKGIIAILDDACMNVGKVTDGMFLEALNSKLGKHGHFSSRKTCASDKILEFDRDFRIRHYAGDVVLPSMTLLSSKL
IRESfinder result
IRESfinder score
0.520325401
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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