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mmu_circMtmr3_264
Basic information of circular RNA
PanCircBase ID:
mmu_circMtmr3_264
mm39_Chr. Position ID:
chr11|4457589|4467907|-
Gene name:
Mtmr3
Transcript:
ENSMUST00000109943.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
7,6
Exon/intron offsets:
0,10151
Genomic length:
10318
Exon/intron sizes in nt:
97,167
Flanking exon/introns:
chr11:4454145-4457589|chr11:4467907-4470831
Splice length:
264
Other database IDs:
circAtlas: mmu-Mtmr3_0077
circBase: hsa_circ_0001219, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_90407
Human Ortholog IDs:
Mature spliced Sequence:
GTGTCAGTTCCCAACCTTTGAGCAATGTCAAGATTGGCTTAAGAGATTGAACAATGCAATCCGACCACCTGGTAAAATAGAAGATCTCTTCTCATTTGCATACCATGCTTGGTGCATGGAGGTCTACGCCAGTGAAAAGGAGCAGCATGGAGACCTGTGCAGACCAGGGGAACATGTGACGTCAAGGTTTAAGAATGAAGTGGAGCGGATGGGTTTTGATATGAACAATGCCTGGAGGATTTCCAACATCAATGAGAAATACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGGGAACATGTGACGTCA
59.97
AGGTGGTCGGATTGCATTGT
59.96
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATGAAGTGGAGCGGATGGG
60.11
AGGTGGTCGGATTGCATTGT
59.96
141
PCR template sequence:
CAGGGGAACATGTGACGTCAAGGTTTAAGAATGAAGTGGAGCGGATGGGTTTTGATATGAACAATGCCTGGAGGATTTCCAACATCAATGAGAAATACAAGTGTCAGTTCCCAACCTTTGAGCAATGTCAAGATTGGCTTAAGAGATTGAACAATGCAATCCGACCACCTGGTAAAATAGAAGATCTCTTCTCATTTGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-501-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGAGAAATACAAGTGTCAGTTCCCA
siRNA sets
AACTGACACTTGTATTTCT, ACTGACACTTGTATTTCTC, GAACTGACACTTGTATTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMTMR3_264_ORF_1
0.8059
0.270137295
0.577760492
411
ORF sequence:
ATGGAGGTCTACGCCAGTGAAAAGGAGCAGCATGGAGACCTGTGCAGACCAGGGGAACATGTGACGTCAAGGTTTAAGAATGAAGTGGAGCGGATGGGTTTTGATATGAACAATGCCTGGAGGATTTCCAACATCAATGAGAAATACAAGTGTCAGTTCCCAACCTTTGAGCAATGTCAAGATTGGCTTAAGAGATTGAACAATGCAATCCGACCACCTGGTAAAATAGAAGATCTCTTCTCATTTGCATACCATGCTTGGTGCATGGAGGTCTACGCCAGTGAAAAGGAGCAGCATGGAGACCTGTGCAGACCAGGGGAACATGTGACGTCAAGGTTTAAGAATGAAGTGGAGCGGATGGGTTTTGATATGAACAATGCCTGGAGGATTTCCAACATCAATGAGAAATAC
Peptide sequence:
MEVYASEKEQHGDLCRPGEHVTSRFKNEVERMGFDMNNAWRISNINEKYKCQFPTFEQCQDWLKRLNNAIRPPGKIEDLFSFAYHAWCMEVYASEKEQHGDLCRPGEHVTSRFKNEVERMGFDMNNAWRISNINEKY
IRESfinder result
IRESfinder score
0.548540486
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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