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mmu_circMtmr3_1202
Basic information of circular RNA
PanCircBase ID:
mmu_circMtmr3_1202
mm39_Chr. Position ID:
chr11|4447337|4481305|-
Gene name:
Mtmr3
Transcript:
ENSMUST00000109943.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,593,1550,6694,10252,20403,23494,30498,30979,33884
Genomic length:
33968
Exon/intron sizes in nt:
112,132,206,114,97,167,83,117,90,84
Flanking exon/introns:
chr11:4442914-4447337|chr11:4481305-4544602
Splice length:
1202
Other database IDs:
circAtlas: mmu-Mtmr3_0006
Human Ortholog IDs:
Mature spliced Sequence:
TAAAAGGTCTCAAGCAGAAGAGAAAGAGTAGCCTTGTCAGAGACTGGAGAAGGACGCAGCCGCTCCTGACCTGGCCTGGTCATGGATGAAGAGATGCGGCATAGCCTTGAGTGCATCCAGGCCAATCAGATCTTTCCCAGGAAGCAGCTGATTCGGGAGGATGAGAATCTTCAGGTTCCTTTCCTTGAACTTCATGGAGAGAGCACAGAGTATGTGGGCCGTGCTGAGGAGGCCATCATTGCTCTTTCTAATTACAGGCTTCACATCAAGTTCAAGGAGTCTCTTGTCAATGTTCCATTACAGCTTATTGAAAGCGTTGAATGCCGTGATATATTTCAGCTTCATTTGACATGCAAAGACTGCAAAGTTATCAGGTGTCAGTTCCCAACCTTTGAGCAATGTCAAGATTGGCTTAAGAGATTGAACAATGCAATCCGACCACCTGGTAAAATAGAAGATCTCTTCTCATTTGCATACCATGCTTGGTGCATGGAGGTCTACGCCAGTGAAAAGGAGCAGCATGGAGACCTGTGCAGACCAGGGGAACATGTGACGTCAAGGTTTAAGAATGAAGTGGAGCGGATGGGTTTTGATATGAACAATGCCTGGAGGATTTCCAACATCAATGAGAAATACAAATTATGTGGTAGTTATCCACAAGAGCTCATAGTGCCTGCTTGGATCACTGACAAAGAGCTGGAAAGCGTGGCAGGCTTCAGATCCTGGAAGCGCATCCCTGCTGTCATCTACAGGCACCAGAGCAATGGAGCTGTCATTGCCCGCTGCGGACAACCGGAGGTTAGCTGGTGGGGCTGGCGAAATGCTGATGATGAACATCTGGTGCAGTCAGTGGCCAGAGCCTGTGCTTCTGACTCTCAGTCAAGTATCAGCAAGGTTTCCACTCGGAACAGTTGTCGGGACTTTCCCAACGCAGGGGATCTTTCAGATGTGGAGTTCGATTCCTCTCTGTCAAATACTTCAGGAGCAGAAAGTTTAGCTCTCCAGCCCCAGAAGCTTTTGATCTTGGATGCACGCTCCTATGCAGCAGCTGTGGCAAATCGAGCCAAAGGAGGAGGCTGTGAGTGCCCAGAGTATTATCCTAACTGTGAAGTTGTGTTTATGGGAATGGCAAACATACATTCTATCCGGAGGAGTTTCCAGTCTCTGCGGCTGCTGTGCACACAGATGCCAGATCCTGGAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGTTTCCAGTCTCTGCGG
60.39
TTCATCCATGACCAGGCCAG
59.74
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGTTTCCAGTCTCTGCGG
60.39
CTTCATCCATGACCAGGCCA
59.74
143
PCR template sequence:
ACTGTGAAGTTGTGTTTATGGGAATGGCAAACATACATTCTATCCGGAGGAGTTTCCAGTCTCTGCGGCTGCTGTGCACACAGATGCCAGATCCTGGAAATAAAAGGTCTCAAGCAGAAGAGAAAGAGTAGCCTTGTCAGAGACTGGAGAAGGACGCAGCCGCTCCTGACCTGGCCTGGTCATGGATGAAGAGATGCGGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-181a-5p(1), mmu-miR-326-3p(1), mmu-miR-181b-5p(1), mmu-miR-136-5p(1), mmu-miR-127-5p(1), mmu-miR-501-3p(1), mmu-miR-362-5p(1), mmu-miR-297a-5p(1), mmu-miR-680(1), mmu-miR-690(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-484(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
CAGATCCTGGAAATAAAAGGTCTCAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMTMR3_1202_ORF_1
0.8826
0.200949893
0.995834828
1152
ORF sequence:
ATGGATGAAGAGATGCGGCATAGCCTTGAGTGCATCCAGGCCAATCAGATCTTTCCCAGGAAGCAGCTGATTCGGGAGGATGAGAATCTTCAGGTTCCTTTCCTTGAACTTCATGGAGAGAGCACAGAGTATGTGGGCCGTGCTGAGGAGGCCATCATTGCTCTTTCTAATTACAGGCTTCACATCAAGTTCAAGGAGTCTCTTGTCAATGTTCCATTACAGCTTATTGAAAGCGTTGAATGCCGTGATATATTTCAGCTTCATTTGACATGCAAAGACTGCAAAGTTATCAGGTGTCAGTTCCCAACCTTTGAGCAATGTCAAGATTGGCTTAAGAGATTGAACAATGCAATCCGACCACCTGGTAAAATAGAAGATCTCTTCTCATTTGCATACCATGCTTGGTGCATGGAGGTCTACGCCAGTGAAAAGGAGCAGCATGGAGACCTGTGCAGACCAGGGGAACATGTGACGTCAAGGTTTAAGAATGAAGTGGAGCGGATGGGTTTTGATATGAACAATGCCTGGAGGATTTCCAACATCAATGAGAAATACAAATTATGTGGTAGTTATCCACAAGAGCTCATAGTGCCTGCTTGGATCACTGACAAAGAGCTGGAAAGCGTGGCAGGCTTCAGATCCTGGAAGCGCATCCCTGCTGTCATCTACAGGCACCAGAGCAATGGAGCTGTCATTGCCCGCTGCGGACAACCGGAGGTTAGCTGGTGGGGCTGGCGAAATGCTGATGATGAACATCTGGTGCAGTCAGTGGCCAGAGCCTGTGCTTCTGACTCTCAGTCAAGTATCAGCAAGGTTTCCACTCGGAACAGTTGTCGGGACTTTCCCAACGCAGGGGATCTTTCAGATGTGGAGTTCGATTCCTCTCTGTCAAATACTTCAGGAGCAGAAAGTTTAGCTCTCCAGCCCCAGAAGCTTTTGATCTTGGATGCACGCTCCTATGCAGCAGCTGTGGCAAATCGAGCCAAAGGAGGAGGCTGTGAGTGCCCAGAGTATTATCCTAACTGTGAAGTTGTGTTTATGGGAATGGCAAACATACATTCTATCCGGAGGAGTTTCCAGTCTCTGCGGCTGCTGTGCACACAGATGCCAGATCCTGGAAATAAAAGGTCTCAAGCAGAAGAGAAAGAGTAG
Peptide sequence:
MDEEMRHSLECIQANQIFPRKQLIREDENLQVPFLELHGESTEYVGRAEEAIIALSNYRLHIKFKESLVNVPLQLIESVECRDIFQLHLTCKDCKVIRCQFPTFEQCQDWLKRLNNAIRPPGKIEDLFSFAYHAWCMEVYASEKEQHGDLCRPGEHVTSRFKNEVERMGFDMNNAWRISNINEKYKLCGSYPQELIVPAWITDKELESVAGFRSWKRIPAVIYRHQSNGAVIARCGQPEVSWWGWRNADDEHLVQSVARACASDSQSSISKVSTRNSCRDFPNAGDLSDVEFDSSLSNTSGAESLALQPQKLLILDARSYAAAVANRAKGGGCECPEYYPNCEVVFMGMANIHSIRRSFQSLRLLCTQMPDPGNKRSQAEEKE
IRESfinder result
IRESfinder score
0.556335431
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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