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mmu_circAmmecr1l_226
Basic information of circular RNA
PanCircBase ID:
mmu_circAmmecr1l_226
mm39_Chr. Position ID:
chr18|31907288|31907804|+
Gene name:
Ammecr1l
Transcript:
ENSMUST00000234500.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,5
Exon/intron offsets:
0,401
Genomic length:
516
Exon/intron sizes in nt:
1,11,115
Flanking exon/introns:
chr18:31905167-31907288|chr18:31907804-31909039
Splice length:
226
Other database IDs:
CIRCpedia: MMU_CIRCpedia_39365, circAtlas: mmu-Ammecr1l_0004
circAtlas: hsa-AMMECR1L_0004, CIRCpedia: HSA_CIRCpedia_37794
Human Ortholog IDs:
Mature spliced Sequence:
TCCTCTCTTTGTGACCTGGAAGACAGGGCGAGACAAGCGGCTTCGTGGCTGCATTGGGACCTTCTCAGCCATGAATCTTCATTCAGGACTCAGGGAATACACATTAACCAGTGCACTTAAGGACAGCCGATTCCCTCCCCTGACCCGAGAGGAGCTGCCCAAACTTTTCTGTTCTGTCTCCCTCCTTACTAACTTTGAAGATGCCAGTGACTACCTGGACTGGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGAGGAGCTGCCCAAACTT
59.96
TGAGAAGGTCCCAATGCAGC
60.32
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGAGGAGCTGCCCAAACTT
59.96
GCTGAGAAGGTCCCAATGCA
60.32
149
PCR template sequence:
CCGATTCCCTCCCCTGACCCGAGAGGAGCTGCCCAAACTTTTCTGTTCTGTCTCCCTCCTTACTAACTTTGAAGATGCCAGTGACTACCTGGACTGGGAGTCCTCTCTTTGTGACCTGGAAGACAGGGCGAGACAAGCGGCTTCGTGGCTGCATTGGGACCTTCTCAGCCATGAATCTTCATTCAGGACTCAGGGAATAC
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-125b-5p(1), mmu-miR-339-5p(1), mmu-miR-467b-5p(1), mmu-miR-680(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGGACTGGGAGTCCTCTCTTTGTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAMMECR1L_226_ORF_1
0.5482
0.041202357
0.111639943
276
ORF sequence:
ATGAATCTTCATTCAGGACTCAGGGAATACACATTAACCAGTGCACTTAAGGACAGCCGATTCCCTCCCCTGACCCGAGAGGAGCTGCCCAAACTTTTCTGTTCTGTCTCCCTCCTTACTAACTTTGAAGATGCCAGTGACTACCTGGACTGGGAGTCCTCTCTTTGTGACCTGGAAGACAGGGCGAGACAAGCGGCTTCGTGGCTGCATTGGGACCTTCTCAGCCATGAATCTTCATTCAGGACTCAGGGAATACACATTAACCAGTGCACTTAA
Peptide sequence:
MNLHSGLREYTLTSALKDSRFPPLTREELPKLFCSVSLLTNFEDASDYLDWESSLCDLEDRARQAASWLHWDLLSHESSFRTQGIHINQCT
IRESfinder result
IRESfinder score
0.808814843
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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