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mmu_circAblim1_425
Basic information of circular RNA
PanCircBase ID:
mmu_circAblim1_425
mm39_Chr. Position ID:
chr19|57056522|57068303|-
Gene name:
Ablim1
Transcript:
ENSMUST00000079360.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
12,11,10,9,8
Exon/intron offsets:
0,769,5764,9323,11722
Genomic length:
11781
Exon/intron sizes in nt:
156,78,48,84,59
Flanking exon/introns:
chr19:57052233-57056522|chr19:57068303-57071947
Splice length:
425
Other database IDs:
circAtlas: mmu-Ablim1_0065
Human Ortholog IDs:
Mature spliced Sequence:
GTTCTACCGTGTGGCATCCCGACTGTAAGCAGTCCACTAAGACAGAGGAGAAGCTGCGGCCACCAAACATCCCGCGCTCTTCATCCGATTTCTTTTACCCCAAAAGTCTGATTCGTCGCACAGGACGGTCCCCAGCTCTGCAGCTTCTGTCGCCACCCTGTCTGATGAACTCCAACAAAAACCCCAGGCAGCCCACCAGGACCTCCTCTGAAAGTATCTATTCTAGACCAGGCTCCAGCATCCCTGGTTCACCAGGCCATACTATCTATGCAAAAGTAGACAATGAAATCCTGGATTACAAGGATTTAGCAGCCATCCCCAAGGTCAAGGCGATCTATGACATCGAGCGTCCAGATCTCATTACCTATGAGCCTTTCTACACATCAGGCTATGAGGACAAGCAGGAGAGACAGAGCCTTGGAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGACATCGAGCGTCCAGATC
59.62
GAAATCGGATGAAGAGCGCG
59.77
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACATCGAGCGTCCAGATC
59.62
CGCAGCTTCTCCTCTGTCTT
59.75
146
PCR template sequence:
CAAGGCGATCTATGACATCGAGCGTCCAGATCTCATTACCTATGAGCCTTTCTACACATCAGGCTATGAGGACAAGCAGGAGAGACAGAGCCTTGGAGAGGTTCTACCGTGTGGCATCCCGACTGTAAGCAGTCCACTAAGACAGAGGAGAAGCTGCGGCCACCAAACATCCCGCGCTCTTCATCCGATTTCTTTTACCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-511-3p(1), mmu-miR-362-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GAGCCTTGGAGAGGTTCTACCGTGTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABLIM1_425_ORF_1
0.7928
0.185402913
0.414310648
372
ORF sequence:
ATGAACTCCAACAAAAACCCCAGGCAGCCCACCAGGACCTCCTCTGAAAGTATCTATTCTAGACCAGGCTCCAGCATCCCTGGTTCACCAGGCCATACTATCTATGCAAAAGTAGACAATGAAATCCTGGATTACAAGGATTTAGCAGCCATCCCCAAGGTCAAGGCGATCTATGACATCGAGCGTCCAGATCTCATTACCTATGAGCCTTTCTACACATCAGGCTATGAGGACAAGCAGGAGAGACAGAGCCTTGGAGAGGTTCTACCGTGTGGCATCCCGACTGTAAGCAGTCCACTAAGACAGAGGAGAAGCTGCGGCCACCAAACATCCCGCGCTCTTCATCCGATTTCTTTTACCCCAAAAGTCTGA
Peptide sequence:
MNSNKNPRQPTRTSSESIYSRPGSSIPGSPGHTIYAKVDNEILDYKDLAAIPKVKAIYDIERPDLITYEPFYTSGYEDKQERQSLGEVLPCGIPTVSSPLRQRRSCGHQTSRALHPISFTPKV
IRESfinder result
IRESfinder score
0.602981764
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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