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mmu_circAbca5_852
Basic information of circular RNA
PanCircBase ID:
mmu_circAbca5_852
mm39_Chr. Position ID:
chr11|110195675|110204343|-
Gene name:
Abca5
Transcript:
ENSMUST00000043961.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
13,12,11,10,9,8
Exon/intron offsets:
0,1395,4540,5287,6461,8479
Genomic length:
8668
Exon/intron sizes in nt:
17,61,11,59,16,91,48,100
Flanking exon/introns:
chr11:110195038-110195675|chr11:110204343-110205349
Splice length:
852
Other database IDs:
CIRCpedia: MMU_CIRCpedia_218716, circAtlas: mmu-Abca5_0007
Human Ortholog IDs:
Mature spliced Sequence:
GTGTTTTTTGCTTTAATGCTGACGCCTCTTTTTAAAAAATCAAAACACGTGGGAGTCGTTGAGTTTTTTGTCACCGTGGTGTTTGGATTTGTTGGCCTGCTGATTGTCCTCATAGAAAGTTTCCCCAGGTCGCTGGTGTGGCTCTTCAGTCCTTTGTGTCAGTGTGCCTTTCTGATTGGGATTGCACAGGTCATGCATTTAGAAGATTTTAATGAGGGTGCCTTATTTTCTAATTTGACTGAAGGTCCCTATCCTCTAATTATTACTATTATCATGCTAGCTCTTGACAGTGTGTTCTATGTCCTCCTGGCTGTGTATCTCGACCAAGTCATTCCAGGGGAATTTGGCTTGAGGAGGTCATCTTTGTATTTTTTGAAGCCATCGTATTGGTCAAAAAACAAAAGAAACTATAAGGAGCTATCGGAGGGCAACATTAATGGCAATATTAGTCTCAATGAAATTGTTGAGCCCGTTTCTTCAGAATTTATAGGGAAAGAAGCTATAAGAATAAGTGGTATTCAGAAATCCTATAGAAAGAAAACTGAGAACGTGGAGGCTTTGAGAAATTTGTCATTTGACATATATGAAGGTCAGATTACTGCACTGCTGGGCCACAGTGGAACAGGAAAAAGCACACTGATGAATATTCTGTGTGGACTGTGTCCACCCTCTGATGGGTTTGCTTCTATATATGGACACAGAGTCTCTGAAATAGATGAAATGTTTGAAGCAAGAAAAATGATTGGCATATGTCCGCAGTCAGATATAAACTTTGATGTTCTGACAGTAGAAGAAAATTTATCAATTTTGGCTTCAATCAAAGGAATACCAGCCAACAATATAATTCAAGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTTCAATCAAAGGAATACCAGC
60.44
GGCCAACAAATCCAAACACCA
59.86
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTCAATCAAAGGAATACCAGCC
60.44
GCAGGCCAACAAATCCAAACA
60.2
142
PCR template sequence:
TCCGCAGTCAGATATAAACTTTGATGTTCTGACAGTAGAAGAAAATTTATCAATTTTGGCTTCAATCAAAGGAATACCAGCCAACAATATAATTCAAGAAGTGTTTTTTGCTTTAATGCTGACGCCTCTTTTTAAAAAATCAAAACACGTGGGAGTCGTTGAGTTTTTTGTCACCGTGGTGTTTGGATTTGTTGGCCTGC
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-135a-5p(1), mmu-miR-34c-5p(1), mmu-miR-335-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-214-3p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-34b-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TATAATTCAAGAAGTGTTTTTTGCTT
siRNA sets
AAACACTTCTTGAATTATA, AAGCAAAAAACACTTCTTG, AAAACACTTCTTGAATTAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABCA5_852_ORF_1
0.8056
-0.035753417
0.999740731
1689
ORF sequence:
ATGCTGACGCCTCTTTTTAAAAAATCAAAACACGTGGGAGTCGTTGAGTTTTTTGTCACCGTGGTGTTTGGATTTGTTGGCCTGCTGATTGTCCTCATAGAAAGTTTCCCCAGGTCGCTGGTGTGGCTCTTCAGTCCTTTGTGTCAGTGTGCCTTTCTGATTGGGATTGCACAGGTCATGCATTTAGAAGATTTTAATGAGGGTGCCTTATTTTCTAATTTGACTGAAGGTCCCTATCCTCTAATTATTACTATTATCATGCTAGCTCTTGACAGTGTGTTCTATGTCCTCCTGGCTGTGTATCTCGACCAAGTCATTCCAGGGGAATTTGGCTTGAGGAGGTCATCTTTGTATTTTTTGAAGCCATCGTATTGGTCAAAAAACAAAAGAAACTATAAGGAGCTATCGGAGGGCAACATTAATGGCAATATTAGTCTCAATGAAATTGTTGAGCCCGTTTCTTCAGAATTTATAGGGAAAGAAGCTATAAGAATAAGTGGTATTCAGAAATCCTATAGAAAGAAAACTGAGAACGTGGAGGCTTTGAGAAATTTGTCATTTGACATATATGAAGGTCAGATTACTGCACTGCTGGGCCACAGTGGAACAGGAAAAAGCACACTGATGAATATTCTGTGTGGACTGTGTCCACCCTCTGATGGGTTTGCTTCTATATATGGACACAGAGTCTCTGAAATAGATGAAATGTTTGAAGCAAGAAAAATGATTGGCATATGTCCGCAGTCAGATATAAACTTTGATGTTCTGACAGTAGAAGAAAATTTATCAATTTTGGCTTCAATCAAAGGAATACCAGCCAACAATATAATTCAAGAAGTGTTTTTTGCTTTAATGCTGACGCCTCTTTTTAAAAAATCAAAACACGTGGGAGTCGTTGAGTTTTTTGTCACCGTGGTGTTTGGATTTGTTGGCCTGCTGATTGTCCTCATAGAAAGTTTCCCCAGGTCGCTGGTGTGGCTCTTCAGTCCTTTGTGTCAGTGTGCCTTTCTGATTGGGATTGCACAGGTCATGCATTTAGAAGATTTTAATGAGGGTGCCTTATTTTCTAATTTGACTGAAGGTCCCTATCCTCTAATTATTACTATTATCATGCTAGCTCTTGACAGTGTGTTCTATGTCCTCCTGGCTGTGTATCTCGACCAAGTCATTCCAGGGGAATTTGGCTTGAGGAGGTCATCTTTGTATTTTTTGAAGCCATCGTATTGGTCAAAAAACAAAAGAAACTATAAGGAGCTATCGGAGGGCAACATTAATGGCAATATTAGTCTCAATGAAATTGTTGAGCCCGTTTCTTCAGAATTTATAGGGAAAGAAGCTATAAGAATAAGTGGTATTCAGAAATCCTATAGAAAGAAAACTGAGAACGTGGAGGCTTTGAGAAATTTGTCATTTGACATATATGAAGGTCAGATTACTGCACTGCTGGGCCACAGTGGAACAGGAAAAAGCACACTGATGAATATTCTGTGTGGACTGTGTCCACCCTCTGATGGGTTTGCTTCTATATATGGACACAGAGTCTCTGAAATAGATGAAATGTTTGAAGCAAGAAAAATGATTGGCATATGTCCGCAGTCAGATATAAACTTTGATGTTCTGACAGTAGAAGAAAATTTATCAATTTTGGCTTCAATCAAAGGAATACCAGCCAACAATATAATTCAAGAA
Peptide sequence:
MLTPLFKKSKHVGVVEFFVTVVFGFVGLLIVLIESFPRSLVWLFSPLCQCAFLIGIAQVMHLEDFNEGALFSNLTEGPYPLIITIIMLALDSVFYVLLAVYLDQVIPGEFGLRRSSLYFLKPSYWSKNKRNYKELSEGNINGNISLNEIVEPVSSEFIGKEAIRISGIQKSYRKKTENVEALRNLSFDIYEGQITALLGHSGTGKSTLMNILCGLCPPSDGFASIYGHRVSEIDEMFEARKMIGICPQSDINFDVLTVEENLSILASIKGIPANNIIQEVFFALMLTPLFKKSKHVGVVEFFVTVVFGFVGLLIVLIESFPRSLVWLFSPLCQCAFLIGIAQVMHLEDFNEGALFSNLTEGPYPLIITIIMLALDSVFYVLLAVYLDQVIPGEFGLRRSSLYFLKPSYWSKNKRNYKELSEGNINGNISLNEIVEPVSSEFIGKEAIRISGIQKSYRKKTENVEALRNLSFDIYEGQITALLGHSGTGKSTLMNILCGLCPPSDGFASIYGHRVSEIDEMFEARKMIGICPQSDINFDVLTVEENLSILASIKGIPANNIIQE
IRESfinder result
IRESfinder score
0.814126663
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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