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mmu_circMtdh_891
Basic information of circular RNA
PanCircBase ID:
mmu_circMtdh_891
mm39_Chr. Position ID:
chr15|34114169|34134544|+
Gene name:
Mtdh
Transcript:
ENSMUST00000022865.17
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
3,4,5,6,7,8,9
Exon/intron offsets:
0,775,2287,3856,9644,17140,20267
Genomic length:
20375
Exon/intron sizes in nt:
85,177,66,231,99,125,108
Flanking exon/introns:
chr15:34099731-34114169|chr15:34134544-34136832
Splice length:
891
Other database IDs:
circAtlas: hsa-MTDH_0022, CIRCpedia: HSA_CIRCpedia_170849
Human Ortholog IDs:
Mature spliced Sequence:
TCAAAGAAAAATAAGAAGAAATCAAAGTCAGATGCTAAAGCAGTGCAAAACAGTTCACGCCATGATGGAAAGGAAGTTGATGAAGGAGCCTGGGAAACTAAAATTAGTCACAGAGAGAAACGACAACAGCGTAAACGTGATAAAGTGCTGACTGATTCTGGTTCATTGGATTCAACTATCCCTGGGATAGAAAATATCATCACAGTTACCACCGAGCAACTTACAACTGCATCATTTCCTGTTGGTTCCAAGAAGAATAAAGGTGATTCTCATCTAAATGTTCAAGTTAGCAACTTTAAGTCTGGAAAAGGAGATTCTACACTGCAGGTTTCTTCAAGGCTGAATGAAAATCTTACTGTCAATGGAGGAGGCTGGAGTGAAAAGTCTGTAAAACTCTCCTCACAATTGAGTGAGGAGAAGTGGAACTCTGTCCCACCTGCTTCTGCAGGCAAGAGGAAAACAGAGCCATCGGCTTGGACTCAAGACACTGGTGACACTAATGCAAATGGGAAAGACTGGGGAAGGAATTGGAGTGATCGCTCAATATTTTCTGGCATTGGATCTACTGCTGAGCCAGTTTCTCAGTCTACCACTTCTGATTATCAGTGGGATGTTAGCCGTAATCAACCTTATATCGATGATGAATGGTCTGGGTTAAATGGTTTGTCTTCTGCTGACCCTAGCTCAGACTGGAATGCACCAGCAGAGGAGTGGGGGAACTGGGTAGATGAAGATAGAGCTTCACTTCTGAAGTCCCAGGAACCAATTTCTAATGATCAAAAGGTTTCAGATGATGATAAAGAAAAAGGGGAGGGAGCTCTTCCAACTGGAAAATCTAAAAAGAAAAAGAAGAAAAAGAAGAAGCAAGGGGAAGATAACTCTCACACACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGGGGAGGGAGCTCTTCC
60.92
GGCGTGAACTGTTTTGCACT
59.9
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGGGGAGGGAGCTCTTCC
60.92
TGGCGTGAACTGTTTTGCAC
60.18
149
PCR template sequence:
TGATGATAAAGAAAAAGGGGAGGGAGCTCTTCCAACTGGAAAATCTAAAAAGAAAAAGAAGAAAAAGAAGAAGCAAGGGGAAGATAACTCTCACACACAGTCAAAGAAAAATAAGAAGAAATCAAAGTCAGATGCTAAAGCAGTGCAAAACAGTTCACGCCATGATGGAAAGGAAGTTGATGAAGGAGCCTGGGAAACTA
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-135a-5p(1), mmu-miR-24-3p(1), mmu-miR-136-5p(1), mmu-miR-382-5p(1), mmu-miR-383-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCTCACACACAGTCAAAGAAAAATA
siRNA sets
TTTTTCTTTGACTGTGTGT, TATTTTTCTTTGACTGTGT, TTTTCTTTGACTGTGTGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMTDH_891_ORF_1
1.1784
-0.058434004
0.200394342
270
ORF sequence:
ATGATCAAAAGGTTTCAGATGATGATAAAGAAAAAGGGGAGGGAGCTCTTCCAACTGGAAAATCTAAAAAGAAAAAGAAGAAAAAGAAGAAGCAAGGGGAAGATAACTCTCACACACAGTCAAAGAAAAATAAGAAGAAATCAAAGTCAGATGCTAAAGCAGTGCAAAACAGTTCACGCCATGATGGAAAGGAAGTTGATGAAGGAGCCTGGGAAACTAAAATTAGTCACAGAGAGAAACGACAACAGCGTAAACGTGATAAAGTGCTGA
Peptide sequence:
MIKRFQMMIKKKGRELFQLENLKRKRRKRRSKGKITLTHSQRKIRRNQSQMLKQCKTVHAMMERKLMKEPGKLKLVTERNDNSVNVIKC
IRESfinder result
IRESfinder score
0.607665327
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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