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mmu_circMyo1d_617
Basic information of circular RNA
PanCircBase ID:
mmu_circMyo1d_617
mm39_Chr. Position ID:
chr11|80531044|80561845|-
Gene name:
Myo1d
Transcript:
ENSMUST00000041065.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
15,14,13,12,11
Exon/intron offsets:
0,17174,22822,26356,30630
Genomic length:
30801
Exon/intron sizes in nt:
16,71,33,75,71,171
Flanking exon/introns:
chr11:80528907-80531044|chr11:80561845-80565439
Splice length:
617
Other database IDs:
circAtlas: mmu-Myo1d_0011
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_352297
Human Ortholog IDs:
Mature spliced Sequence:
ATTGATTACTTCAACAACCAGATCATTGTGGACCTCGTGGAGCAGCAGCACAAAGGCATCATTGCAATCCTGGATGACGCGTGTATGAATGTTGGCAAAGTCACTGACGGAATGTTCCTTGAGGCCCTTAACAGTAAATTGGGCAAACATGGTCATTTTTCCAGCCGAAAGACCTGTGCCTCAGACAAAATCCTGGAGTTTGATCGGGACTTTCGAATCCGTCATTATGCGGGTGACGTGGTCTATTCTGCCATCGGTTTTATCGACAAAAATAAAGATACTTTATTTCAAGATTTCAAGCGCCTTATGTATAACAGCTCAAATCCTGTGCTGAAGAATATGTGGCCCGAAGGCAAGCTCAGCATTACAGAGGTGACCAAGAGGCCTCTGACCGCTGCCACCTTGTTTAAGAATTCTATGATTGCTTTAGTAGACAACCTTGCTTCAAAGGAGCCGTACTATGTGCGTTGCATCAAACCCAATGACAAGAAGTCCCCACAGATATTTGACGATGAGCGCTGCCGCCATCAGGTAGAATACCTGGGGCTGCTGGAGAATGTGAGAGTGCGCCGGGCAGGGTTTGCCTTCCGCCAGACCTACGAGAAGTTTCTTCACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTGCTGGAGAATGTGAGA
59.75
CATACACGCGTCATCCAGGA
59.9
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTGCTGGAGAATGTGAGA
59.75
TCATACACGCGTCATCCAGG
59.9
161
PCR template sequence:
GCTGCCGCCATCAGGTAGAATACCTGGGGCTGCTGGAGAATGTGAGAGTGCGCCGGGCAGGGTTTGCCTTCCGCCAGACCTACGAGAAGTTTCTTCACAGATTGATTACTTCAACAACCAGATCATTGTGGACCTCGTGGAGCAGCAGCACAAAGGCATCATTGCAATCCTGGATGACGCGTGTATGAATGTTGGCAAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(1), mmu-miR-181a-5p(1), mmu-miR-181b-5p(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGTTTCTTCACAGATTGATTACTTCA
siRNA sets
AAGTAATCAATCTGTGAAG, TGAAGTAATCAATCTGTGA, AGTAATCAATCTGTGAAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMYO1D_617_ORF_1
0.7115
0.234888225
0.81650501
621
ORF sequence:
ATGAATGTTGGCAAAGTCACTGACGGAATGTTCCTTGAGGCCCTTAACAGTAAATTGGGCAAACATGGTCATTTTTCCAGCCGAAAGACCTGTGCCTCAGACAAAATCCTGGAGTTTGATCGGGACTTTCGAATCCGTCATTATGCGGGTGACGTGGTCTATTCTGCCATCGGTTTTATCGACAAAAATAAAGATACTTTATTTCAAGATTTCAAGCGCCTTATGTATAACAGCTCAAATCCTGTGCTGAAGAATATGTGGCCCGAAGGCAAGCTCAGCATTACAGAGGTGACCAAGAGGCCTCTGACCGCTGCCACCTTGTTTAAGAATTCTATGATTGCTTTAGTAGACAACCTTGCTTCAAAGGAGCCGTACTATGTGCGTTGCATCAAACCCAATGACAAGAAGTCCCCACAGATATTTGACGATGAGCGCTGCCGCCATCAGGTAGAATACCTGGGGCTGCTGGAGAATGTGAGAGTGCGCCGGGCAGGGTTTGCCTTCCGCCAGACCTACGAGAAGTTTCTTCACAGATTGATTACTTCAACAACCAGATCATTGTGGACCTCGTGGAGCAGCAGCACAAAGGCATCATTGCAATCCTGGATGACGCGTGTATGA
Peptide sequence:
MNVGKVTDGMFLEALNSKLGKHGHFSSRKTCASDKILEFDRDFRIRHYAGDVVYSAIGFIDKNKDTLFQDFKRLMYNSSNPVLKNMWPEGKLSITEVTKRPLTAATLFKNSMIALVDNLASKEPYYVRCIKPNDKKSPQIFDDERCRHQVEYLGLLENVRVRRAGFAFRQTYEKFLHRLITSTTRSLWTSWSSSTKASLQSWMTRV
IRESfinder result
IRESfinder score
0.634215853
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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