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mmu_circMff_500
Basic information of circular RNA
PanCircBase ID:
mmu_circMff_500
mm39_Chr. Position ID:
chr1|82704948|82709003|+
Gene name:
Mff
Transcript:
ENSMUST00000078332.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,1988,3885
Genomic length:
4055
Exon/intron sizes in nt:
10,92,21,170
Flanking exon/introns:
chr1:82702805-82704948|chr1:82709003-82713139
Splice length:
500
Other database IDs:
CIRCpedia: MMU_CIRCpedia_224066, circAtlas: mmu-Mff_0009
circBase: hsa_circ_0058502, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_135406
Human Ortholog IDs:
Mature spliced Sequence:
GGATAAAAGTGGCTCTCACCCTAGCACATGTGCATCGGAGCAATTTAAGGAGTTAATATGAAGCACAGAAGCAGATAGTGCCAAATAGCAAGCCTGTTGTTTCACATTTGGTGAGTGGGGCAGCATTTCCTTCTCCCACTGCTGCTGAGATGGCAGAAATTAGTCGAATTCAGTATGAAATGGAATACACCGAAGGTATTAGTCAGCGAATGAGGGTCCCGGAAAAATTAAAAGTAGCACCACCAAATGCTGACCTGGAGCAAGAGTTCCAAGATGGAGTTCCAAATGCCAGTGTGATAATGCAAGTCCCAGAGAGGATCGTGGTTACAGGAAATAATGAAGACATTTCATTTTCAAGACCAGCAGATCTTGACCTTATCCAGTCCACTCCCTTTAAACCTCTGGCACTGAAAACACCACCACGCGTGCTCACACTGAGTGAGAGACCACTAGATTTCCTGGATTTAGAAAGACCACTTCCAACTCCTCAAAGCGAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCACTGAAAACACCACCAC
59.9
ATTGCTCCGATGCACATGTG
59.26
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCACTGAAAACACCACCACG
60.25
ATTGCTCCGATGCACATGTG
59.26
140
PCR template sequence:
TCTGGCACTGAAAACACCACCACGCGTGCTCACACTGAGTGAGAGACCACTAGATTTCCTGGATTTAGAAAGACCACTTCCAACTCCTCAAAGCGAAGAGGGATAAAAGTGGCTCTCACCCTAGCACATGTGCATCGGAGCAATTTAAGGAGTTAATATGAAGCACAGAAGCAGATAGTGCCAAATAGCAAGCCTGTTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-203-3p(1), mmu-miR-96-5p(1), mmu-miR-218-5p(1), mmu-miR-705(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAAAGCGAAGAGGGATAAAAGTGGC
siRNA sets
CACTTTTATCCCTCTTCGC, ACTTTTATCCCTCTTCGCT, TTTATCCCTCTTCGCTTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMFF_500_ORF_1
1.0644
0.123439526
0.448642397
357
ORF sequence:
ATGGCAGAAATTAGTCGAATTCAGTATGAAATGGAATACACCGAAGGTATTAGTCAGCGAATGAGGGTCCCGGAAAAATTAAAAGTAGCACCACCAAATGCTGACCTGGAGCAAGAGTTCCAAGATGGAGTTCCAAATGCCAGTGTGATAATGCAAGTCCCAGAGAGGATCGTGGTTACAGGAAATAATGAAGACATTTCATTTTCAAGACCAGCAGATCTTGACCTTATCCAGTCCACTCCCTTTAAACCTCTGGCACTGAAAACACCACCACGCGTGCTCACACTGAGTGAGAGACCACTAGATTTCCTGGATTTAGAAAGACCACTTCCAACTCCTCAAAGCGAAGAGGGATAA
Peptide sequence:
MAEISRIQYEMEYTEGISQRMRVPEKLKVAPPNADLEQEFQDGVPNASVIMQVPERIVVTGNNEDISFSRPADLDLIQSTPFKPLALKTPPRVLTLSERPLDFLDLERPLPTPQSEEG
IRESfinder result
IRESfinder score
0.648254948
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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