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mmu_circAscc3_560
Basic information of circular RNA
PanCircBase ID:
mmu_circAscc3_560
mm39_Chr. Position ID:
chr10|50493807|50494367|+
Gene name:
Ascc3
Transcript:
ENSMUST00000035606.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
560
Exon/intron sizes in nt:
560
Flanking exon/introns:
chr10:50484166-50493807|chr10:50494367-50514003
Splice length:
560
Other database IDs:
circBase: mmu_circ_0002257, CIRCpedia: MMU_CIRCpedia_21892, circAtlas: mmu-Ascc3_0004
circBase: hsa_circ_0077497, circAtlas: hsa-ASCC3_0006, CIRCpedia: HSA_CIRCpedia_53149
Human Ortholog IDs:
Mature spliced Sequence:
TTGGAACGGATAATGGGAGAGAAGCAATTGAGAGTGGGGCTGCATTTCTCTTTATGACATTTCACATGACGGACTCTGTTGGTTACATGGAGACAAAGGCTATCAGACAGACGTTTGGTCCCTTTCCATCGTCATCTGCTACTTCAGCTTGTAATGCCACTAATCGAATTATTTCTCATTTTAGTCAAGATGATCTCACTGCTTTTGTCCAGATGGCAGAAAACCCATGTAACGATAGAGTGGTTTTTGGCAAAAACTTAGCATTTTCTTTTGACATGTATGATCTGGACCACTTTGATGAATTACCAATAAATGGTGAATCCCAGAAAACTATAAGCTTAGACTACAAGAAGTTCCTGAATGAACAGTTCCAGGAACCCTACACTCCTGAGCTCAAGCCTGTGGAGAAAACAAATGGCTCCCTATTGTGGTGTGAAGTTGAGAAGTACTTAAACGCAACGTTAAAGGAAATGACTGAAGCAGCAAGAGTTGAAGATCTTTGCTGTACTCTATATGACATGCTTGCTTCTGCTAAAAGCGGCGATGAACTTCAGGACGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGACTGAAGCAGCAAGAGTTGA
60.16
AGAGAAATGCAGCCCCACTC
60.03
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACTGAAGCAGCAAGAGTTG
58.78
AGAGAAATGCAGCCCCACTC
60.03
140
PCR template sequence:
GTTAAAGGAAATGACTGAAGCAGCAAGAGTTGAAGATCTTTGCTGTACTCTATATGACATGCTTGCTTCTGCTAAAAGCGGCGATGAACTTCAGGACGAGTTGGAACGGATAATGGGAGAGAAGCAATTGAGAGTGGGGCTGCATTTCTCTTTATGACATTTCACATGACGGACTCTGTTGGTTACATGGAGACAAAGGC
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-539-5p(2), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-203-3p(1), mmu-miR-676-3p(1), mmu-miR-129-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTTCAGGACGAGTTGGAACGGATAA
siRNA sets
TATCCGTTCCAACTCGTCC, TTATCCGTTCCAACTCGTC, ATCCGTTCCAACTCGTCCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCASCC3_560_ORF_1
0.8847
0.110342501
0.710348624
564
ORF sequence:
ATGACATTTCACATGACGGACTCTGTTGGTTACATGGAGACAAAGGCTATCAGACAGACGTTTGGTCCCTTTCCATCGTCATCTGCTACTTCAGCTTGTAATGCCACTAATCGAATTATTTCTCATTTTAGTCAAGATGATCTCACTGCTTTTGTCCAGATGGCAGAAAACCCATGTAACGATAGAGTGGTTTTTGGCAAAAACTTAGCATTTTCTTTTGACATGTATGATCTGGACCACTTTGATGAATTACCAATAAATGGTGAATCCCAGAAAACTATAAGCTTAGACTACAAGAAGTTCCTGAATGAACAGTTCCAGGAACCCTACACTCCTGAGCTCAAGCCTGTGGAGAAAACAAATGGCTCCCTATTGTGGTGTGAAGTTGAGAAGTACTTAAACGCAACGTTAAAGGAAATGACTGAAGCAGCAAGAGTTGAAGATCTTTGCTGTACTCTATATGACATGCTTGCTTCTGCTAAAAGCGGCGATGAACTTCAGGACGAGTTGGAACGGATAATGGGAGAGAAGCAATTGAGAGTGGGGCTGCATTTCTCTTTATGA
Peptide sequence:
MTFHMTDSVGYMETKAIRQTFGPFPSSSATSACNATNRIISHFSQDDLTAFVQMAENPCNDRVVFGKNLAFSFDMYDLDHFDELPINGESQKTISLDYKKFLNEQFQEPYTPELKPVEKTNGSLLWCEVEKYLNATLKEMTEAARVEDLCCTLYDMLASAKSGDELQDELERIMGEKQLRVGLHFSL
IRESfinder result
IRESfinder score
0.52702102
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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