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mmu_circEftud2_443
Basic information of circular RNA
PanCircBase ID:
mmu_circEftud2_443
mm39_Chr. Position ID:
chr11|102753436|102759478|-
Gene name:
Eftud2
Transcript:
ENSMUST00000021306.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
10,9,8,7,6
Exon/intron offsets:
0,2097,2959,5235,5976
Genomic length:
6042
Exon/intron sizes in nt:
167,83,91,36,66
Flanking exon/introns:
chr11:102750952-102753436|chr11:102759478-102759920
Splice length:
443
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ACCTGTTTCGTAGATTGTTTAATAGAACAGACGCATCCGGAAATCAGAAAGCGCTATGACCAAGACCTATGCTATACTGACATCCTCTTCACAGAACAAGAGAGAGGCGTCGGCATCAAGAGCACTCCGGTGACGGTGGTGCTGCCGGACACCAAAGGGAAGTCTTACCTCTTCAACATCATGGACACGCCAGGTCATGTGAATTTTTCTGATGAGGTCACAGCTGGCTTGCGCATCTCAGATGGAGTGGTCCTTTTCATTGATGCTGCTGAGGGGGTGATGCTGAACACAGAGCGGCTGATCAAGCACGCAGTGCAGGAAAGGTTAGCAGTCACCGTGTGTATCAACAAAATCGACCGGCTGATCTTGGAGCTGAAGCTGCCTCCAACAGATGCTTATTACAAGCTGCGACACATTGTGGATGAGGTCAATGGATTAATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGCTGATCTTGGAGCTGAA
60.11
AGCGCTTTCTGATTTCCGGA
60.04
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATCGACCGGCTGATCTTGG
60.18
AGCGCTTTCTGATTTCCGGA
60.04
148
PCR template sequence:
TCAACAAAATCGACCGGCTGATCTTGGAGCTGAAGCTGCCTCCAACAGATGCTTATTACAAGCTGCGACACATTGTGGATGAGGTCAATGGATTAATAAGACCTGTTTCGTAGATTGTTTAATAGAACAGACGCATCCGGAAATCAGAAAGCGCTATGACCAAGACCTATGCTATACTGACATCCTCTTCACAGAACAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-134-5p(1), mmu-miR-15a-5p(1), mmu-miR-103-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-107-3p(1), mmu-miR-499-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGGATTAATAAGACCTGTTTCGTAG
siRNA sets
AAACAGGTCTTATTAATCC, AACAGGTCTTATTAATCCA, GAAACAGGTCTTATTAATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEFTUD2_443_ORF_1
1.0853
0.355289316
0.549529991
276
ORF sequence:
ATGGACACGCCAGGTCATGTGAATTTTTCTGATGAGGTCACAGCTGGCTTGCGCATCTCAGATGGAGTGGTCCTTTTCATTGATGCTGCTGAGGGGGTGATGCTGAACACAGAGCGGCTGATCAAGCACGCAGTGCAGGAAAGGTTAGCAGTCACCGTGTGTATCAACAAAATCGACCGGCTGATCTTGGAGCTGAAGCTGCCTCCAACAGATGCTTATTACAAGCTGCGACACATTGTGGATGAGGTCAATGGATTAATAAGACCTGTTTCGTAG
Peptide sequence:
MDTPGHVNFSDEVTAGLRISDGVVLFIDAAEGVMLNTERLIKHAVQERLAVTVCINKIDRLILELKLPPTDAYYKLRHIVDEVNGLIRPVS
IRESfinder result
IRESfinder score
0.304897222
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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