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mmu_circMtmr3_1038
Basic information of circular RNA
PanCircBase ID:
mmu_circMtmr3_1038
mm39_Chr. Position ID:
chr11|4448887|4496268|-
Gene name:
Mtmr3
Transcript:
ENSMUST00000040448.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
9,8,7,6,5,4,3,2,1
Exon/intron offsets:
0,5144,8702,18853,21944,28948,29429,32334,47301
Genomic length:
47381
Exon/intron sizes in nt:
206,114,97,167,83,117,90,84,80
Flanking exon/introns:
chr11:4448062-4448887|None
Splice length:
1038
Other database IDs:
CIRCpedia: MMU_CIRCpedia_20479, circAtlas: mmu-Mtmr3_0013
Human Ortholog IDs:
Mature spliced Sequence:
TAGAGTATTTGATCTGTTGTTGAGGTGGGGTGAAAGAAGTGGACAACAGCTCCAGCCGCTTCTGTCCTCTGTGCCAAAAGTAAAAGGTCTCAAGCAGAAGAGAAAGAGTAGCCTTGTCAGAGACTGGAGAAGGACGCAGCCGCTCCTGACCTGGCCTGGTCATGGATGAAGAGATGCGGCATAGCCTTGAGTGCATCCAGGCCAATCAGATCTTTCCCAGGAAGCAGCTGATTCGGGAGGATGAGAATCTTCAGGTTCCTTTCCTTGAACTTCATGGAGAGAGCACAGAGTATGTGGGCCGTGCTGAGGAGGCCATCATTGCTCTTTCTAATTACAGGCTTCACATCAAGTTCAAGGAGTCTCTTGTCAATGTTCCATTACAGCTTATTGAAAGCGTTGAATGCCGTGATATATTTCAGCTTCATTTGACATGCAAAGACTGCAAAGTTATCAGGTGTCAGTTCCCAACCTTTGAGCAATGTCAAGATTGGCTTAAGAGATTGAACAATGCAATCCGACCACCTGGTAAAATAGAAGATCTCTTCTCATTTGCATACCATGCTTGGTGCATGGAGGTCTACGCCAGTGAAAAGGAGCAGCATGGAGACCTGTGCAGACCAGGGGAACATGTGACGTCAAGGTTTAAGAATGAAGTGGAGCGGATGGGTTTTGATATGAACAATGCCTGGAGGATTTCCAACATCAATGAGAAATACAAATTATGTGGTAGTTATCCACAAGAGCTCATAGTGCCTGCTTGGATCACTGACAAAGAGCTGGAAAGCGTGGCAGGCTTCAGATCCTGGAAGCGCATCCCTGCTGTCATCTACAGGCACCAGAGCAATGGAGCTGTCATTGCCCGCTGCGGACAACCGGAGGTTAGCTGGTGGGGCTGGCGAAATGCTGATGATGAACATCTGGTGCAGTCAGTGGCCAGAGCCTGTGCTTCTGACTCTCAGTCAAGTATCAGCAAGGTTTCCACTCGGAACAGTTGTCGGGACTTTCCCAACGCAGGGGATCTTTCAGATGTGGAGTTCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCAAGGTTTCCACTCGGA
60.25
TTGGCACAGAGGACAGAAGC
60.25
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGCAAGGTTTCCACTCGG
60.25
TTGGCACAGAGGACAGAAGC
60.25
149
PCR template sequence:
GCCTGTGCTTCTGACTCTCAGTCAAGTATCAGCAAGGTTTCCACTCGGAACAGTTGTCGGGACTTTCCCAACGCAGGGGATCTTTCAGATGTGGAGTTCGTAGAGTATTTGATCTGTTGTTGAGGTGGGGTGAAAGAAGTGGACAACAGCTCCAGCCGCTTCTGTCCTCTGTGCCAAAAGTAAAAGGTCTCAAGCAGAAG
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-181a-5p(1), mmu-miR-181b-5p(1), mmu-miR-136-5p(1), mmu-miR-127-5p(1), mmu-miR-501-3p(1), mmu-miR-96-5p(1), mmu-miR-362-5p(1), mmu-miR-690(1), mmu-miR-207(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
GATGTGGAGTTCGTAGAGTATTTGAT
siRNA sets
CAAATACTCTACGAACTCC, ATACTCTACGAACTCCACA, ATCAAATACTCTACGAACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMTMR3_1038_ORF_1
0.9362
0.208266762
0.97802369
900
ORF sequence:
ATGGATGAAGAGATGCGGCATAGCCTTGAGTGCATCCAGGCCAATCAGATCTTTCCCAGGAAGCAGCTGATTCGGGAGGATGAGAATCTTCAGGTTCCTTTCCTTGAACTTCATGGAGAGAGCACAGAGTATGTGGGCCGTGCTGAGGAGGCCATCATTGCTCTTTCTAATTACAGGCTTCACATCAAGTTCAAGGAGTCTCTTGTCAATGTTCCATTACAGCTTATTGAAAGCGTTGAATGCCGTGATATATTTCAGCTTCATTTGACATGCAAAGACTGCAAAGTTATCAGGTGTCAGTTCCCAACCTTTGAGCAATGTCAAGATTGGCTTAAGAGATTGAACAATGCAATCCGACCACCTGGTAAAATAGAAGATCTCTTCTCATTTGCATACCATGCTTGGTGCATGGAGGTCTACGCCAGTGAAAAGGAGCAGCATGGAGACCTGTGCAGACCAGGGGAACATGTGACGTCAAGGTTTAAGAATGAAGTGGAGCGGATGGGTTTTGATATGAACAATGCCTGGAGGATTTCCAACATCAATGAGAAATACAAATTATGTGGTAGTTATCCACAAGAGCTCATAGTGCCTGCTTGGATCACTGACAAAGAGCTGGAAAGCGTGGCAGGCTTCAGATCCTGGAAGCGCATCCCTGCTGTCATCTACAGGCACCAGAGCAATGGAGCTGTCATTGCCCGCTGCGGACAACCGGAGGTTAGCTGGTGGGGCTGGCGAAATGCTGATGATGAACATCTGGTGCAGTCAGTGGCCAGAGCCTGTGCTTCTGACTCTCAGTCAAGTATCAGCAAGGTTTCCACTCGGAACAGTTGTCGGGACTTTCCCAACGCAGGGGATCTTTCAGATGTGGAGTTCGTAGAGTATTTGATCTGTTGTTGA
Peptide sequence:
MDEEMRHSLECIQANQIFPRKQLIREDENLQVPFLELHGESTEYVGRAEEAIIALSNYRLHIKFKESLVNVPLQLIESVECRDIFQLHLTCKDCKVIRCQFPTFEQCQDWLKRLNNAIRPPGKIEDLFSFAYHAWCMEVYASEKEQHGDLCRPGEHVTSRFKNEVERMGFDMNNAWRISNINEKYKLCGSYPQELIVPAWITDKELESVAGFRSWKRIPAVIYRHQSNGAVIARCGQPEVSWWGWRNADDEHLVQSVARACASDSQSSISKVSTRNSCRDFPNAGDLSDVEFVEYLICC
IRESfinder result
IRESfinder score
0.592346875
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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