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mmu_circTfcp2_353
Basic information of circular RNA
PanCircBase ID:
mmu_circTfcp2_353
mm39_Chr. Position ID:
chr15|100415830|100418596|-
Gene name:
Tfcp2
Transcript:
ENSMUST00000229696.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
9,8,7
Exon/intron offsets:
0,620,2613
Genomic length:
2766
Exon/intron sizes in nt:
89,111,153
Flanking exon/introns:
chr15:100412733-100415830|chr15:100418596-100420269
Splice length:
353
Other database IDs:
CIRCpedia: MMU_CIRCpedia_180, circAtlas: mmu-Tfcp2_0013
Human Ortholog IDs:
Mature spliced Sequence:
GTGCACTGCATCAGCACTGAGTTCACCATGAGGAAGCATGGCGGGGAGAAGGGGGTGCCGTTCCGAGTGCAGATCGATACCTTCAAGGAGAACGGGAACGGAGAGTACACAGAGCACTTGCACTCGGCCAGCTGCCAGATCAAAGTCTTCAAGCCTAAGGGTGCAGACAGAAAACAAAAAATAGATAGAGAGAAAATGGAGAAACGGACGCCCCATGAAAAAGAGAAATATCAACCTTCTTATGAGACAACCATACTCACCGAGTGTTCTCCGTGGCCTGAGATCACCTACGTCAACAATTCCCCATCCCCTGGCTTCAACAGCTCCCATAGCAGTTTCTCTCTTGGGGAAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGCCTGAGATCACCTACG
59.9
GGTATCGATCTGCACTCGGA
59.05
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGTGGCCTGAGATCACCTAC
59.9
GGTATCGATCTGCACTCGGA
59.05
163
PCR template sequence:
TACTCACCGAGTGTTCTCCGTGGCCTGAGATCACCTACGTCAACAATTCCCCATCCCCTGGCTTCAACAGCTCCCATAGCAGTTTCTCTCTTGGGGAAGGGTGCACTGCATCAGCACTGAGTTCACCATGAGGAAGCATGGCGGGGAGAAGGGGGTGCCGTTCCGAGTGCAGATCGATACCTTCAAGGAGAACGGGAACG
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-7b-5p(1), mmu-miR-136-5p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
CTCTTGGGGAAGGGTGCACTGCATCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTFCP2_353_ORF_1
0.8564
0.238440304
0.471049668
357
ORF sequence:
ATGAGGAAGCATGGCGGGGAGAAGGGGGTGCCGTTCCGAGTGCAGATCGATACCTTCAAGGAGAACGGGAACGGAGAGTACACAGAGCACTTGCACTCGGCCAGCTGCCAGATCAAAGTCTTCAAGCCTAAGGGTGCAGACAGAAAACAAAAAATAGATAGAGAGAAAATGGAGAAACGGACGCCCCATGAAAAAGAGAAATATCAACCTTCTTATGAGACAACCATACTCACCGAGTGTTCTCCGTGGCCTGAGATCACCTACGTCAACAATTCCCCATCCCCTGGCTTCAACAGCTCCCATAGCAGTTTCTCTCTTGGGGAAGGGTGCACTGCATCAGCACTGAGTTCACCATGA
Peptide sequence:
MRKHGGEKGVPFRVQIDTFKENGNGEYTEHLHSASCQIKVFKPKGADRKQKIDREKMEKRTPHEKEKYQPSYETTILTECSPWPEITYVNNSPSPGFNSSHSSFSLGEGCTASALSSP
IRESfinder result
IRESfinder score
0.620270006
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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