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mmu_circAbce1_739
Basic information of circular RNA
PanCircBase ID:
mmu_circAbce1_739
mm39_Chr. Position ID:
chr8|80416865|80427881|-
Gene name:
Abce1
Transcript:
ENSMUST00000080536.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
11,10,9,8,7,6
Exon/intron offsets:
0,3187,9110,10349,10676,10878
Genomic length:
11016
Exon/intron sizes in nt:
22,21,22,90,97,70,138
Flanking exon/introns:
chr8:80415996-80416865|chr8:80427881-80428402
Splice length:
739
Other database IDs:
CIRCpedia: MMU_CIRCpedia_222273, circAtlas: mmu-Abce1_0002
circAtlas: hsa-ABCE1_0006
Human Ortholog IDs:
Mature spliced Sequence:
GATCCACCTGATTGGCAAGAGATTTTGACTTATTTCCGTGGATCTGAATTACAAAATTACTTTACCAAGATTCTCGAAGATGACCTAAAAGCCATTATCAAACCTCAATATGTAGACCAAATTCCCAAGGCTGCAAAGGGGACAGTGGGCTCTATTCTGGACCGAAAAGATGAAACAAAGACACAGGCAATTGTATGTCAGCAGCTTGATTTAACTCACCTTAAAGAACGAAATGTCGAAGATCTTTCAGGAGGAGAGTTGCAGAGATTTGCTTGTGCTGTCGTTTGCATACAAAAGGCTGATATTTTTATGTTTGATGAACCTTCTAGTTACCTCGATGTCAAGCAACGTTTAAAGGCTGCCATTACGATTCGATCTCTAATAAATCCAGATAGATATATCATTGTGGTGGAGCATGATCTAAGTGTATTAGACTATCTCTCTGACTTCATCTGCTGTCTATATGGGGTACCGAGTGCTTATGGTGTTGTCACGATGCCTTTTAGTGTAAGAGAAGGCATAAATATATTTTTGGATGGCTATGTTCCAACAGAGAACCTGAGGTTCAGGGATGCGTCGCTTGTTTTTAAGGTAGCTGAGACAGCAAATGAAGAAGAAGTTAAAAAGATGTGCATGTATAAATATCCCGGGATGAAGAAAAAGATGGGAGAGTTCGAGCTAGCAATTGTAGCTGGAGAGTTCACGGACTCTGAGATCATGGTGATGCTGGGGGAGAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGGAGAGTTCACGGACTC
60.11
TGGCTTTTAGGTCATCTTCGAGA
59.49
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGAGAGTTCGAGCTAGCA
60.32
TGGCTTTTAGGTCATCTTCGAGA
59.49
169
PCR template sequence:
AAATATCCCGGGATGAAGAAAAAGATGGGAGAGTTCGAGCTAGCAATTGTAGCTGGAGAGTTCACGGACTCTGAGATCATGGTGATGCTGGGGGAGAATGGATCCACCTGATTGGCAAGAGATTTTGACTTATTTCCGTGGATCTGAATTACAAAATTACTTTACCAAGATTCTCGAAGATGACCTAAAAGCCATTATCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-362-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGGGGGAGAATGGATCCACCTGATT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABCE1_739_ORF_1
1.0022
0.110901838
0.915815902
741
ORF sequence:
ATGGATCCACCTGATTGGCAAGAGATTTTGACTTATTTCCGTGGATCTGAATTACAAAATTACTTTACCAAGATTCTCGAAGATGACCTAAAAGCCATTATCAAACCTCAATATGTAGACCAAATTCCCAAGGCTGCAAAGGGGACAGTGGGCTCTATTCTGGACCGAAAAGATGAAACAAAGACACAGGCAATTGTATGTCAGCAGCTTGATTTAACTCACCTTAAAGAACGAAATGTCGAAGATCTTTCAGGAGGAGAGTTGCAGAGATTTGCTTGTGCTGTCGTTTGCATACAAAAGGCTGATATTTTTATGTTTGATGAACCTTCTAGTTACCTCGATGTCAAGCAACGTTTAAAGGCTGCCATTACGATTCGATCTCTAATAAATCCAGATAGATATATCATTGTGGTGGAGCATGATCTAAGTGTATTAGACTATCTCTCTGACTTCATCTGCTGTCTATATGGGGTACCGAGTGCTTATGGTGTTGTCACGATGCCTTTTAGTGTAAGAGAAGGCATAAATATATTTTTGGATGGCTATGTTCCAACAGAGAACCTGAGGTTCAGGGATGCGTCGCTTGTTTTTAAGGTAGCTGAGACAGCAAATGAAGAAGAAGTTAAAAAGATGTGCATGTATAAATATCCCGGGATGAAGAAAAAGATGGGAGAGTTCGAGCTAGCAATTGTAGCTGGAGAGTTCACGGACTCTGAGATCATGGTGATGCTGGGGGAGAAT
Peptide sequence:
MDPPDWQEILTYFRGSELQNYFTKILEDDLKAIIKPQYVDQIPKAAKGTVGSILDRKDETKTQAIVCQQLDLTHLKERNVEDLSGGELQRFACAVVCIQKADIFMFDEPSSYLDVKQRLKAAITIRSLINPDRYIIVVEHDLSVLDYLSDFICCLYGVPSAYGVVTMPFSVREGINIFLDGYVPTENLRFRDASLVFKVAETANEEEVKKMCMYKYPGMKKKMGEFELAIVAGEFTDSEIMVMLGEN
IRESfinder result
IRESfinder score
0.582807196
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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