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mmu_circMyt1_565
Basic information of circular RNA
PanCircBase ID:
mmu_circMyt1_565
mm39_Chr. Position ID:
chr2|181456841|181464552|+
Gene name:
Myt1
Transcript:
ENSMUST00000081125.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
17,18,19,20,21
Exon/intron offsets:
0,481,4958,6883,7607
Genomic length:
7711
Exon/intron sizes in nt:
6,38,42,22,92,104
Flanking exon/introns:
chr2:181453216-181456841|chr2:181464552-181467190
Splice length:
565
Other database IDs:
circAtlas: mmu-Myt1_0006
Human Ortholog IDs:
Mature spliced Sequence:
GTGCCCCACACCTGGCTGTGATGGCTCTGGCCACATAACAGGGAACTATGCTTCACACCGGAGTTTGTCAGGCTGCCCACGTGCCAAGAAGAGTGGACTCAAGGTGGCGCCTACCAAGGATGACAAGGAGGACCCCGAGTTGATGAAGTGCCCAGTTCCAGGCTGTGTGGGGCTCGGCCACATCAGCGGCAAATATGCCTCTCACAGGAGTGCTTCTGGCTGCCCACTGGCTGCTCGGAGGCAGAAAGAGGGAGCTCTCAATGGTTCATCTTTCTCGTGGAAGTCGCTGAAGAATGAGGGCCCTACTTGCCCCACCCCAGGTTGCGACGGCTCTGGCCATGCCAACGGCAGTTTCCTCACCCACCGAAGTTTGTCTGGCTGTCCCAGAGCAACCTTTGCTGGAAAGAAAGGAAAACTCTCAGGGGATGAGATTCTCAGCCCAAAGTTCAAGACAAGTGATGTGCTGGAGAATGATGAGGAGATCAAGCAGCTAAATCAGGAGATACGAGACTTAAATGAGTCCAATTCGGAAATGGAGGCTGCCATGGTGCAGCTGCAGTCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTCGGAAATGGAGGCTGCC
60.75
AGTCCACTCTTCTTGGCACG
59.97
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATTCGGAAATGGAGGCTGC
58.89
AGTCCACTCTTCTTGGCACG
59.97
141
PCR template sequence:
GGAGAATGATGAGGAGATCAAGCAGCTAAATCAGGAGATACGAGACTTAAATGAGTCCAATTCGGAAATGGAGGCTGCCATGGTGCAGCTGCAGTCTCAGGTGCCCCACACCTGGCTGTGATGGCTCTGGCCACATAACAGGGAACTATGCTTCACACCGGAGTTTGTCAGGCTGCCCACGTGCCAAGAAGAGTGGACTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-125b-5p(1), mmu-miR-362-5p(1), mmu-miR-3061-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTGCAGTCTCAGGTGCCCCACACCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMYT1_565_ORF_1
0.7726
0.263001586
0.842977226
615
ORF sequence:
ATGAGTCCAATTCGGAAATGGAGGCTGCCATGGTGCAGCTGCAGTCTCAGGTGCCCCACACCTGGCTGTGATGGCTCTGGCCACATAACAGGGAACTATGCTTCACACCGGAGTTTGTCAGGCTGCCCACGTGCCAAGAAGAGTGGACTCAAGGTGGCGCCTACCAAGGATGACAAGGAGGACCCCGAGTTGATGAAGTGCCCAGTTCCAGGCTGTGTGGGGCTCGGCCACATCAGCGGCAAATATGCCTCTCACAGGAGTGCTTCTGGCTGCCCACTGGCTGCTCGGAGGCAGAAAGAGGGAGCTCTCAATGGTTCATCTTTCTCGTGGAAGTCGCTGAAGAATGAGGGCCCTACTTGCCCCACCCCAGGTTGCGACGGCTCTGGCCATGCCAACGGCAGTTTCCTCACCCACCGAAGTTTGTCTGGCTGTCCCAGAGCAACCTTTGCTGGAAAGAAAGGAAAACTCTCAGGGGATGAGATTCTCAGCCCAAAGTTCAAGACAAGTGATGTGCTGGAGAATGATGAGGAGATCAAGCAGCTAAATCAGGAGATACGAGACTTAAATGAGTCCAATTCGGAAATGGAGGCTGCCATGGTGCAGCTGCAGTCTCAG
Peptide sequence:
MSPIRKWRLPWCSCSLRCPTPGCDGSGHITGNYASHRSLSGCPRAKKSGLKVAPTKDDKEDPELMKCPVPGCVGLGHISGKYASHRSASGCPLAARRQKEGALNGSSFSWKSLKNEGPTCPTPGCDGSGHANGSFLTHRSLSGCPRATFAGKKGKLSGDEILSPKFKTSDVLENDEEIKQLNQEIRDLNESNSEMEAAMVQLQSQ
IRESfinder result
IRESfinder score
0.257546318
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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