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mmu_circFancd2_225
Basic information of circular RNA
PanCircBase ID:
mmu_circFancd2_225
mm39_Chr. Position ID:
chr6|113555321|113558438|+
Gene name:
Fancd2
Transcript:
ENSMUST00000036340.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
34,35
Exon/intron offsets:
0,3023
Genomic length:
3117
Exon/intron sizes in nt:
131,94
Flanking exon/introns:
chr6:113554436-113555321|chr6:113558438-113560372
Splice length:
225
Other database IDs:
CIRCpedia: MMU_CIRCpedia_212973, circAtlas: mmu-Fancd2_0002
Human Ortholog IDs:
Mature spliced Sequence:
CCAGAGCTTCAGTTACTTGCAGAACTTCCACCATAGTGTTCCCAGTTTCCAGTGTGGTCTCTACCTTCTCAGACTTCTGATGGCCCTTCTGGAGAAGTCTGCAGTACCTAACCAGAAGAAAGAAAAACTTGCCTCTCTGGCCAAACAGCTGCTTTGCCGAGCATGGCCTCATGGGGAAAAAGAGAAGAACCCCACTTTTAATGACCACCTGCATGATGTGCTTTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAACAGCTGCTTTGCCGAG
60.66
TCTCCAGAAGGGCCATCAGA
59.96
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCCTCATGGGGAAAAAGA
59.22
TCTCCAGAAGGGCCATCAGA
59.96
157
PCR template sequence:
AACTTGCCTCTCTGGCCAAACAGCTGCTTTGCCGAGCATGGCCTCATGGGGAAAAAGAGAAGAACCCCACTTTTAATGACCACCTGCATGATGTGCTTTACCAGAGCTTCAGTTACTTGCAGAACTTCCACCATAGTGTTCCCAGTTTCCAGTGTGGTCTCTACCTTCTCAGACTTCTGATGGCCCTTCTGGAGAAGTCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
ATGATGTGCTTTACCAGAGCTTCAGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFANCD2_225_ORF_1
1.2673
0.208495939
0.649850685
369
ORF sequence:
ATGGCCCTTCTGGAGAAGTCTGCAGTACCTAACCAGAAGAAAGAAAAACTTGCCTCTCTGGCCAAACAGCTGCTTTGCCGAGCATGGCCTCATGGGGAAAAAGAGAAGAACCCCACTTTTAATGACCACCTGCATGATGTGCTTTACCAGAGCTTCAGTTACTTGCAGAACTTCCACCATAGTGTTCCCAGTTTCCAGTGTGGTCTCTACCTTCTCAGACTTCTGATGGCCCTTCTGGAGAAGTCTGCAGTACCTAACCAGAAGAAAGAAAAACTTGCCTCTCTGGCCAAACAGCTGCTTTGCCGAGCATGGCCTCATGGGGAAAAAGAGAAGAACCCCACTTTTAATGACCACCTGCATGATGTGCTT
Peptide sequence:
MALLEKSAVPNQKKEKLASLAKQLLCRAWPHGEKEKNPTFNDHLHDVLYQSFSYLQNFHHSVPSFQCGLYLLRLLMALLEKSAVPNQKKEKLASLAKQLLCRAWPHGEKEKNPTFNDHLHDVL
IRESfinder result
IRESfinder score
0.717009944
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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