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mmu_circMyo1d_588
Basic information of circular RNA
PanCircBase ID:
mmu_circMyo1d_588
mm39_Chr. Position ID:
chr11|80477672|80492632|-
Gene name:
Myo1d
Transcript:
ENSMUST00000041065.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
20,19,18,17
Exon/intron offsets:
0,5940,6892,14736
Genomic length:
14960
Exon/intron sizes in nt:
1,14,10,51,45,224
Flanking exon/introns:
chr11:80448414-80477672|chr11:80492632-80528699
Splice length:
588
Other database IDs:
CIRCpedia: MMU_CIRCpedia_220509, circAtlas: mmu-Myo1d_0004
circBase: hsa_circ_0043047, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_20189
Human Ortholog IDs:
Mature spliced Sequence:
GTGTGGCGTGGCACCCTGGCCCGCATGCGGTACAAGAGGACCAAGGCAGCTCTGACAATAATCAGGTACTACAGGCGCTATAAAGTGAAGTCGTACATCCACGAGGTGGCCAGACGATTCCACGGTGTCAAGAACATGAGGGACTATGGGAAGCATGTGAAGTGGCCAACCCCACCAAAAGTCCTGCGGCGTTTCGAGGAGGCCCTGCAGTCGATTTTTAATAGATGGAGAGCATCCCAACTCATCAAGACCATACCTGCATCAGACCTTCCCCAGGTCAGGGCAAAGGTTGCAGCCATGGAGATGCTGAAAGGTCAAAGGGCAGACCTTGGACTCCAGAGAGCCTGGGAAGGCAACTATCTTGCTTCGAAGCCAGACACACCTCAGACCTCAGGCACTTTCGTCCCAGTTGCTAATGAGCTGAAACGCAAGGACAAGTATATGAACGTTCTCTTTTCCTGTCACGTCCGGAAGGTGAATCGGTTTAGTAAGGTAGAAGACCGAGCAATTTTTGTCACTGACCGTCACCTGTATAAAATGGACCCCACTAAGCAGTACAAGGTGATGAAGACTATCCCACTGTACAAC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTCACTGACCGTCACCTG
59.9
AGCGCCTGTAGTACCTGATT
58.51
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTCACTGACCGTCACCTG
59.9
ACGACTTCACTTTATAGCGCCT
59.83
171
PCR template sequence:
TAAGGTAGAAGACCGAGCAATTTTTGTCACTGACCGTCACCTGTATAAAATGGACCCCACTAAGCAGTACAAGGTGATGAAGACTATCCCACTGTACAACGTGTGGCGTGGCACCCTGGCCCGCATGCGGTACAAGAGGACCAAGGCAGCTCTGACAATAATCAGGTACTACAGGCGCTATAAAGTGAAGTCGTACATCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-20a-5p(1), mmu-miR-17-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCACTGTACAACGTGTGGCGTGGCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMYO1D_588_ORF_1
1.1656
0.336597058
0.998622924
1152
ORF sequence:
ATGCGGTACAAGAGGACCAAGGCAGCTCTGACAATAATCAGGTACTACAGGCGCTATAAAGTGAAGTCGTACATCCACGAGGTGGCCAGACGATTCCACGGTGTCAAGAACATGAGGGACTATGGGAAGCATGTGAAGTGGCCAACCCCACCAAAAGTCCTGCGGCGTTTCGAGGAGGCCCTGCAGTCGATTTTTAATAGATGGAGAGCATCCCAACTCATCAAGACCATACCTGCATCAGACCTTCCCCAGGTCAGGGCAAAGGTTGCAGCCATGGAGATGCTGAAAGGTCAAAGGGCAGACCTTGGACTCCAGAGAGCCTGGGAAGGCAACTATCTTGCTTCGAAGCCAGACACACCTCAGACCTCAGGCACTTTCGTCCCAGTTGCTAATGAGCTGAAACGCAAGGACAAGTATATGAACGTTCTCTTTTCCTGTCACGTCCGGAAGGTGAATCGGTTTAGTAAGGTAGAAGACCGAGCAATTTTTGTCACTGACCGTCACCTGTATAAAATGGACCCCACTAAGCAGTACAAGGTGATGAAGACTATCCCACTGTACAACGTGTGGCGTGGCACCCTGGCCCGCATGCGGTACAAGAGGACCAAGGCAGCTCTGACAATAATCAGGTACTACAGGCGCTATAAAGTGAAGTCGTACATCCACGAGGTGGCCAGACGATTCCACGGTGTCAAGAACATGAGGGACTATGGGAAGCATGTGAAGTGGCCAACCCCACCAAAAGTCCTGCGGCGTTTCGAGGAGGCCCTGCAGTCGATTTTTAATAGATGGAGAGCATCCCAACTCATCAAGACCATACCTGCATCAGACCTTCCCCAGGTCAGGGCAAAGGTTGCAGCCATGGAGATGCTGAAAGGTCAAAGGGCAGACCTTGGACTCCAGAGAGCCTGGGAAGGCAACTATCTTGCTTCGAAGCCAGACACACCTCAGACCTCAGGCACTTTCGTCCCAGTTGCTAATGAGCTGAAACGCAAGGACAAGTATATGAACGTTCTCTTTTCCTGTCACGTCCGGAAGGTGAATCGGTTTAGTAAGGTAGAAGACCGAGCAATTTTTGTCACTGACCGTCACCTGTATAAAATGGACCCCACTAAGCAGTACAAGGTGATGAAGACTATCCCACTGTACAAC
Peptide sequence:
MRYKRTKAALTIIRYYRRYKVKSYIHEVARRFHGVKNMRDYGKHVKWPTPPKVLRRFEEALQSIFNRWRASQLIKTIPASDLPQVRAKVAAMEMLKGQRADLGLQRAWEGNYLASKPDTPQTSGTFVPVANELKRKDKYMNVLFSCHVRKVNRFSKVEDRAIFVTDRHLYKMDPTKQYKVMKTIPLYNVWRGTLARMRYKRTKAALTIIRYYRRYKVKSYIHEVARRFHGVKNMRDYGKHVKWPTPPKVLRRFEEALQSIFNRWRASQLIKTIPASDLPQVRAKVAAMEMLKGQRADLGLQRAWEGNYLASKPDTPQTSGTFVPVANELKRKDKYMNVLFSCHVRKVNRFSKVEDRAIFVTDRHLYKMDPTKQYKVMKTIPLYN
IRESfinder result
IRESfinder score
0.347669846
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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