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mmu_ciChchd1_668
Basic information of circular RNA
PanCircBase ID:
mmu_ciChchd1_668
mm39_Chr. Position ID:
chr14|20753476|20754144|+
Gene name:
Chchd1
Transcript:
ENSMUST00000071215.5
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
668
Exon/intron sizes in nt:
668
Flanking exon/introns:
chr14:20753476-20754188
Splice length:
668
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGATGTCTGGCTCCTAGCGTGCCTTCTTGGGAAAAGAAAGGGGAATACAAAGAAATGGTTCAAGCCGGGCGTGGTGGCGCACGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGTGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAAAGTGAGTGCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCGAAAAACCAAAAAAAAAAAACCAAACGCAAAGAAATGGTTCACACCGCCCTGTGTTAAATTATGTACAGAGTCTCCCATTCATCTGTGACTGGCTCACCCTCACCAAAGTGAGAAAAAGCTAAGTTTTGTCATAGGTTGATCTTCACTAATTTGCTAGCCAGAATAGTAGTTTGAGATGATAACAATCATTTGTACATCCCCAATCCCTTTAAATCCCCTTTTTGTTCCTTTGGGTTTTTTGTTTGTTTGTTTGGGGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGTGTAAGTGCTTGCGTGCTTGAAAATGCAGGGACACATCTGTGGGCACCAGTGCTGTGTGGTGGCCTGAGGTAAACGTCTGGAATTTTCCTCCATTCCTCTTCCACTTTATTCCTTGAGGCAGGGTCTCTTGGGGTTTGGAATATTATAAAAATTATGGGTCTAGGTCAGAATAAGCTAAAGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTGAGGCAGGGTCTCTTGG
60.04
GTGCTGGGATTAAAGGCGTG
59.55
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTGAGGCAGGGTCTCTTG
60.04
GTGCTGGGATTAAAGGCGTG
59.55
172
PCR template sequence:
TTTTCCTCCATTCCTCTTCCACTTTATTCCTTGAGGCAGGGTCTCTTGGGGTTTGGAATATTATAAAAATTATGGGTCTAGGTCAGAATAAGCTAAAGAAGTGATGTCTGGCTCCTAGCGTGCCTTCTTGGGAAAAGAAAGGGGAATACAAAGAAATGGTTCAAGCCGGGCGTGGTGGCGCACGCCTTTAATCCCAGCAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-124-3p(1), mmu-miR-434-3p(1), mmu-miR-541-5p(1), mmu-miR-466d-3p(1), mmu-miR-3470b(1), mmu-miR-466b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATAAGCTAAAGAAGTGATGTCTGGCT
siRNA sets
AGACATCACTTCTTTAGCT,CAGACATCACTTCTTTAGC
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
0.765562427
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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