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mmu_circOfd1_947
Basic information of circular RNA
PanCircBase ID:
mmu_circOfd1_947
mm39_Chr. Position ID:
chrX|165197971|165218531|-
Gene name:
Ofd1
Transcript:
ENSMUST00000049501.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
10,9,8,7,6,5,4,3
Exon/intron offsets:
0,10000,11844,12192,13552,16713,16826,20359
Genomic length:
20560
Exon/intron sizes in nt:
1,20,10,71,74,13,71,08,00,00,000
Flanking exon/introns:
chrX:165196370-165197971|chrX:165218531-165223024
Splice length:
947
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_166430
Human Ortholog IDs:
Mature spliced Sequence:
ACCCAACTCCGAAACCAGCTAATTCATGAATTGATGCATCCTGTATTGAGTGGAGAAGTGAAGCCGCCATCCATTTCAGTGGAAGGGAGTGCCCTCCTAATAGGGGCTTCTAACTCGCTGGTGGCAGACCACTTACAAAGATGTGGCTATGAATATTCACTCTCTGTTTTCTTTCCAGAAAGTGGTTTGGCAAAAGAAAAGATATTTACTATGCAGGATCTACTACAACTCATTCGGATTAACCCCTCATCCAGTCTCTATAAATCATTGATTTCAGGATTTGATAAAGAAAATAAAAAAGGTTTTCTTATGAGTTTCTTAAAGGAGTTGGCAGAATATTATCAAGCTAAAGAGAGCTGTGATGCGGAAACTCAGACAAGCACCACATTTCCCAGCCAAGTGTCCCTAGCCGAGAAGTTTCAGCTTATTGACGCTCAATTTGCAGATGGTTTTCCTCACCGTTCCAAGCTAGAATCTTTAGAGACAAAGTTAAACGAGTATAAGAAAGAAGTACAACACCAGCTTCAGGTAGAAATGTGTCATAAGCTGAAGTATTTTAGAGAAGCTGAAATAACAAAAGTTAAGATGGAAGAGAGAAGAAAGTATGAAAAGGAATTGGCTGAGTTCCAGAATGAATTTGAAAGAACTTGTCAAGCAAAAAATGAAGCCCTCATTTCTCAGGAGAAGAATTCTCTGGAAAGAATTAAAAAACACCGAGAGATGGAATCAAAAGAAATTTATGCTCAAAGACAGCTTCTACTAAATGATATAGCTTTGCTTAGAGGTAGAGAAGCAGAGCTGAAGGAGCGAATCGAAACTTTTGAATTGACCCAGAAGCTCCAAGAAGAAAAAATTAAAAGTGAGGCTGAGGCACTTGAGAGACGGGAACAGAATCTGAAGAATATTGAAGACACCTATGATCAGAAACTCAAAACTGAACTGCTAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCACTTGAGAGACGGGAACA
59.97
GAAATGGATGGCGGCTTCAC
59.9
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCACTTGAGAGACGGGAACA
59.97
GGCACTCCCTTCCACTGAAA
59.89
170
PCR template sequence:
AAAAAATTAAAAGTGAGGCTGAGGCACTTGAGAGACGGGAACAGAATCTGAAGAATATTGAAGACACCTATGATCAGAAACTCAAAACTGAACTGCTAAAACCCAACTCCGAAACCAGCTAATTCATGAATTGATGCATCCTGTATTGAGTGGAGAAGTGAAGCCGCCATCCATTTCAGTGGAAGGGAGTGCCCTCCTAA
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-138-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-425-5p(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGAACTGCTAAAACCCAACTCCGAA
siRNA sets
TTCGGAGTTGGGTTTTAGC, TTGGGTTTTAGCAGTTCAG, TCGGAGTTGGGTTTTAGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCOFD1_947_ORF_1
0.9926
0.076496408
0.974061693
936
ORF sequence:
ATGCATCCTGTATTGAGTGGAGAAGTGAAGCCGCCATCCATTTCAGTGGAAGGGAGTGCCCTCCTAATAGGGGCTTCTAACTCGCTGGTGGCAGACCACTTACAAAGATGTGGCTATGAATATTCACTCTCTGTTTTCTTTCCAGAAAGTGGTTTGGCAAAAGAAAAGATATTTACTATGCAGGATCTACTACAACTCATTCGGATTAACCCCTCATCCAGTCTCTATAAATCATTGATTTCAGGATTTGATAAAGAAAATAAAAAAGGTTTTCTTATGAGTTTCTTAAAGGAGTTGGCAGAATATTATCAAGCTAAAGAGAGCTGTGATGCGGAAACTCAGACAAGCACCACATTTCCCAGCCAAGTGTCCCTAGCCGAGAAGTTTCAGCTTATTGACGCTCAATTTGCAGATGGTTTTCCTCACCGTTCCAAGCTAGAATCTTTAGAGACAAAGTTAAACGAGTATAAGAAAGAAGTACAACACCAGCTTCAGGTAGAAATGTGTCATAAGCTGAAGTATTTTAGAGAAGCTGAAATAACAAAAGTTAAGATGGAAGAGAGAAGAAAGTATGAAAAGGAATTGGCTGAGTTCCAGAATGAATTTGAAAGAACTTGTCAAGCAAAAAATGAAGCCCTCATTTCTCAGGAGAAGAATTCTCTGGAAAGAATTAAAAAACACCGAGAGATGGAATCAAAAGAAATTTATGCTCAAAGACAGCTTCTACTAAATGATATAGCTTTGCTTAGAGGTAGAGAAGCAGAGCTGAAGGAGCGAATCGAAACTTTTGAATTGACCCAGAAGCTCCAAGAAGAAAAAATTAAAAGTGAGGCTGAGGCACTTGAGAGACGGGAACAGAATCTGAAGAATATTGAAGACACCTATGATCAGAAACTCAAAACTGAACTGCTAAAACCCAACTCCGAAACCAGCTAA
Peptide sequence:
MHPVLSGEVKPPSISVEGSALLIGASNSLVADHLQRCGYEYSLSVFFPESGLAKEKIFTMQDLLQLIRINPSSSLYKSLISGFDKENKKGFLMSFLKELAEYYQAKESCDAETQTSTTFPSQVSLAEKFQLIDAQFADGFPHRSKLESLETKLNEYKKEVQHQLQVEMCHKLKYFREAEITKVKMEERRKYEKELAEFQNEFERTCQAKNEALISQEKNSLERIKKHREMESKEIYAQRQLLLNDIALLRGREAELKERIETFELTQKLQEEKIKSEAEALERREQNLKNIEDTYDQKLKTELLKPNSETS
IRESfinder result
IRESfinder score
0.737888858
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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