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mmu_ciIfih1_1049
Basic information of circular RNA
PanCircBase ID:
mmu_ciIfih1_1049
mm39_Chr. Position ID:
chr2|62441004|62442053|-
Gene name:
Ifih1
Transcript:
ENSMUST00000028259.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
1049
Exon/intron sizes in nt:
1049
Flanking exon/introns:
chr2:62441002-62442053
Splice length:
1049
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTGGTTGGAGTGATTATTTTTAGAAAAAAAGACTGAGAGAAATATTAAAGATAGTAACAGAGAATGCTTGTTAAATCATCTTTTTATGATGAAAAGTAACCTTAGTTTAAGTTACTTTTTATTTCACAAGGCGTCATTGAAGTGCTCCACTTCCCTGAAAAAAAGGACCAAAAAGAGAGAAATGGTTAACTTGATGGCTTGCTTTTTTTTTAAGTATATCATTAGTAAATCAAGTACTGTGTTCTTCCATTACTTCTGACACACACAATGCACATGCGCACATGCACGCACGCACTCTCGCGCCCCCCCCCCGCCCCCACACTTTCAACTTATCTCTTGACTGACCCATACCTTACCAGAGTCCGTTTAATTCCTTCCTTGAGAGGTCAATTTTTCTTCCATTGTGCAGTTTCTCTGCCTGTGTCTCTCTGGGAGAATAATTACATTGTGTAATATATGTATACACACACACACACACACACACACACATTTGATGGCAGATTCTGTTAGAACTCCCTTCTTGACTATAGAGTTAAACTACAGTCCTGCCTGCATTATTTGGAATGATAAAATAATTGGGAGGAAAACAGAGAAAAGTAAAAGTATGCAAAGTTTAAAAAGCATAAAATCATAGCTGTCTAAATAATATTCTTTTCACTTGATGTTGCAAAAAGAGACTTTATCAGCCTAGAATTAAAAGTCTATTCTACAATCAAAGTGGGGCCCTGGGAAGATTTTGCGGTTGTTGTTGTTGTTTGTTTGTGTGTGTGTGTAAGAAAGATGTGAATTTCACTGACACTTTCTGCATCTCATCTTGAGACAGGGATAATAGCTGGCAGGAACAGTGTCTTGATGAACACACATGAACTTTGTAGTCTTTAATTTTGCTACTGGTCACGGTTAAAATCATACCAGCAGATTGACATAGGGCTGTGCTAATGTTCTGCCCAAAGACAATGACCCATGGCAGCTCTCTCCTTTAGCTTCAGTGTTCTTGTGTCTCTGTCACAAGCCAGTTTGGGTAAACAGACCTTTTATCTTTCTGTTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATGACCCATGGCAGCTCTC
60.11
ACAAGCATTCTCTGTTACTATCT
55.16
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATGACCCATGGCAGCTCTC
60.11
AGATGATTTAACAAGCATTCTCTGT
57.07
175
PCR template sequence:
CAAAGACAATGACCCATGGCAGCTCTCTCCTTTAGCTTCAGTGTTCTTGTGTCTCTGTCACAAGCCAGTTTGGGTAAACAGACCTTTTATCTTTCTGTTAGTTGGTTGGAGTGATTATTTTTAGAAAAAAAGACTGAGAGAAATATTAAAGATAGTAACAGAGAATGCTTGTTAAATCATCTTTTTATGATGAAAAGTAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-466a-5p(3), mmu-miR-1187(3), mmu-miR-466p-5p(3), mmu-miR-574-5p(2), mmu-miR-141-3p(1), mmu-miR-150-5p(1), mmu-miR-101a-3p(1), mmu-miR-339-5p(1), mmu-miR-127-5p(1), mmu-miR-297a-5p(1), mmu-miR-466d-3p(1), mmu-miR-335-3p(1), mmu-miR-466b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TATCTTTCTGTTAGTTGGTTGGAGTG
siRNA sets
AACCAACTAACAGAAAGAT, ACTCCAACCAACTAACAGA, CAACCAACTAACAGAAAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.904061949
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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