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mmu_circMe2_1066
Basic information of circular RNA
PanCircBase ID:
mmu_circMe2_1066
mm39_Chr. Position ID:
chr18|73924154|73938240|-
Gene name:
Me2
Transcript:
ENSMUST00000025439.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,525,717,3362,3697,5230,6745,10645,13968
Genomic length:
14086
Exon/intron sizes in nt:
11,49,81,10,10,41,62,70,00,00,00,000
Flanking exon/introns:
chr18:73921539-73924154|chr18:73938240-73948374
Splice length:
1066
Other database IDs:
circAtlas: mmu-Me2_0006
Human Ortholog IDs:
Mature spliced Sequence:
GGGAGAGAAGATGTTTTCCCGGCTAAGAGCTGTTACCACTCCTTGTACCTTGACCTGCCGCCGAGTGCACCTGAAAGAGAAGGGCAAGCCACTCATGTTGAATCCAAGAACAAACAAGGGAATGGCGTTTACGTTACAAGAGCGACAAATGCTTGGTCTTCAAGGACTTTTACCTCCTAAAATAGAGACACAGGATATTCAAGCCTTACGATTCCATAGAAACTTGAAAAAAATGACTAGCCCTTTGGAAAAATACATTTATATAATGGGCATCCAAGAAAGAAATGAGAAACTGTTCTATAGAATCCTGCAGGATGATATTGAAAGTCTGATGCCGATTGTGTACACGCCAACAGTTGGTCTTGCCTGCTGTCAATATGGGCACATCTTTAGGAGACCTAAGGGATTGTTTATTTCAATCTCAGACAGAGGTCATGTTAGATCAATTGTGGATAACTGGCCAGAAAATCATGTTAAGGCTGTTGTGGTGACTGATGGAGAGAGGATCCTGGGCCTTGGCGATCTGGGTGTCTATGGAATGGGGATTCCAGTAGGGAAGCTGTGCCTGTATACAGCCTGTGCAGGGATACAGCCCGAGAAGTGCCTGCCCGTGTGCATCGACGTGGGCACTGATAACATGGCACTATTAAAAGATCCGTTTTATATGGGCTTGTATCAGAAGCGAGATCGTTCCCAGCTCTATGATGATCTGATGGACGAGTTTATGAAGGCGATTACTGACAGATACGGCCGGAACACACTCATTCAGTTTGAAGACTTTGGAAATCATAATGCATTCAGGTTCTTAAGAAAATATCAACAAAAATACTGTACCTTCAATGATGACATTCAAGGGACAGCTGCAGTTGCTCTGTCTGGTCTTCTTGCGGCCCAAAGAGTTATTAATAAACCAGTCTCAGAACACAAAATCTTATTTCTTGGAGCAGGAGAAGCTGCACTTGGAATTGCCAATCTCATAGTTCTATCAATGGTGGAAAGTGGTCTCTCAGAAGAGGAGGCGCAGAGAAAGATCTGGATGTTTGACAAGAGTGGCTTGCTGGTTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCGCAGAGAAAGATCTGGA
59.82
ATGAGTGGCTTGCCCTTCTC
60.03
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCGCAGAGAAAGATCTGG
59.82
ATGAGTGGCTTGCCCTTCTC
60.03
146
PCR template sequence:
TGCCAATCTCATAGTTCTATCAATGGTGGAAAGTGGTCTCTCAGAAGAGGAGGCGCAGAGAAAGATCTGGATGTTTGACAAGAGTGGCTTGCTGGTTAAGGGGAGAGAAGATGTTTTCCCGGCTAAGAGCTGTTACCACTCCTTGTACCTTGACCTGCCGCCGAGTGCACCTGAAAGAGAAGGGCAAGCCACTCATGTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-214-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-383-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTGCTGGTTAAGGGGAGAGAAGATG
siRNA sets
ATCTTCTCTCCCCTTAACC, TCTTCTCTCCCCTTAACCA, CATCTTCTCTCCCCTTAAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCME2_1066_ORF_1
0.7698
0.072035009
0.995286046
1236
ORF sequence:
ATGTTTTCCCGGCTAAGAGCTGTTACCACTCCTTGTACCTTGACCTGCCGCCGAGTGCACCTGAAAGAGAAGGGCAAGCCACTCATGTTGAATCCAAGAACAAACAAGGGAATGGCGTTTACGTTACAAGAGCGACAAATGCTTGGTCTTCAAGGACTTTTACCTCCTAAAATAGAGACACAGGATATTCAAGCCTTACGATTCCATAGAAACTTGAAAAAAATGACTAGCCCTTTGGAAAAATACATTTATATAATGGGCATCCAAGAAAGAAATGAGAAACTGTTCTATAGAATCCTGCAGGATGATATTGAAAGTCTGATGCCGATTGTGTACACGCCAACAGTTGGTCTTGCCTGCTGTCAATATGGGCACATCTTTAGGAGACCTAAGGGATTGTTTATTTCAATCTCAGACAGAGGTCATGTTAGATCAATTGTGGATAACTGGCCAGAAAATCATGTTAAGGCTGTTGTGGTGACTGATGGAGAGAGGATCCTGGGCCTTGGCGATCTGGGTGTCTATGGAATGGGGATTCCAGTAGGGAAGCTGTGCCTGTATACAGCCTGTGCAGGGATACAGCCCGAGAAGTGCCTGCCCGTGTGCATCGACGTGGGCACTGATAACATGGCACTATTAAAAGATCCGTTTTATATGGGCTTGTATCAGAAGCGAGATCGTTCCCAGCTCTATGATGATCTGATGGACGAGTTTATGAAGGCGATTACTGACAGATACGGCCGGAACACACTCATTCAGTTTGAAGACTTTGGAAATCATAATGCATTCAGGTTCTTAAGAAAATATCAACAAAAATACTGTACCTTCAATGATGACATTCAAGGGACAGCTGCAGTTGCTCTGTCTGGTCTTCTTGCGGCCCAAAGAGTTATTAATAAACCAGTCTCAGAACACAAAATCTTATTTCTTGGAGCAGGAGAAGCTGCACTTGGAATTGCCAATCTCATAGTTCTATCAATGGTGGAAAGTGGTCTCTCAGAAGAGGAGGCGCAGAGAAAGATCTGGATGTTTGACAAGAGTGGCTTGCTGGTTAAGGGGAGAGAAGATGTTTTCCCGGCTAAGAGCTGTTACCACTCCTTGTACCTTGACCTGCCGCCGAGTGCACCTGAAAGAGAAGGGCAAGCCACTCATGTTGAATCCAAGAACAAACAAGGGAATGGCGTTTACGTTACAAGAGCGACAAATGCTTGGTCTTCAAGGACTTTTACCTCCTAA
Peptide sequence:
MFSRLRAVTTPCTLTCRRVHLKEKGKPLMLNPRTNKGMAFTLQERQMLGLQGLLPPKIETQDIQALRFHRNLKKMTSPLEKYIYIMGIQERNEKLFYRILQDDIESLMPIVYTPTVGLACCQYGHIFRRPKGLFISISDRGHVRSIVDNWPENHVKAVVVTDGERILGLGDLGVYGMGIPVGKLCLYTACAGIQPEKCLPVCIDVGTDNMALLKDPFYMGLYQKRDRSQLYDDLMDEFMKAITDRYGRNTLIQFEDFGNHNAFRFLRKYQQKYCTFNDDIQGTAAVALSGLLAAQRVINKPVSEHKILFLGAGEAALGIANLIVLSMVESGLSEEEAQRKIWMFDKSGLLVKGREDVFPAKSCYHSLYLDLPPSAPEREGQATHVESKNKQGNGVYVTRATNAWSSRTFTS
IRESfinder result
IRESfinder score
0.628178839
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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