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mmu_circAgo3_437
Basic information of circular RNA
PanCircBase ID:
mmu_circAgo3_437
mm39_Chr. Position ID:
chr4|126240423|126244113|-
Gene name:
Ago3
Transcript:
ENSMUST00000069097.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
18,17,16
Exon/intron offsets:
0,1137,3555
Genomic length:
3690
Exon/intron sizes in nt:
20,01,02,135
Flanking exon/introns:
chr4:126239375-126240423|chr4:126244113-126244647
Splice length:
437
Other database IDs:
circBase: hsa_circ_0011656, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_31631
Human Ortholog IDs:
Mature spliced Sequence:
GTATTATATTATGAGCTACTGGCAATTCGAGAAGCCTGTATCAGTTTGGAAAAAGACTATCAACCTGGAATAACCTACATTGTTGTTCAGAAGAGACATCATACACGGTTGTTCTGTGCTGATAGGACAGAAAGGGTTGGAAGAAGCGGCAACATCCCAGCTGGAACCACGGTGGATACCGACATTACTCACCCATATGAATTCGACTTTTATCTCTGTAGCCATGCTGGAATACAGGGTACCAGCCGTCCTTCACACTATCATGTTTTATGGGATGACAACTTCTTTACTGCAGATGAACTTCAGCTGCTCACTTACCAGCTCTGTCACACTTACGTACGCTGTACAAGATCTGTTTCTATCCCTGCACCAGCATATTACGCTCACCTGGTGGCATTCAGAGCCAGATATCATCTTGTGGACAAGGAACATGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TATTACGCTCACCTGGTGGC
59.82
ACAACAATGTAGGTTATTCCAGGT
58.11
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TATTACGCTCACCTGGTGGC
59.82
TGTCTCTTCTGAACAACAATGTAGG
59.01
160
PCR template sequence:
TACGCTGTACAAGATCTGTTTCTATCCCTGCACCAGCATATTACGCTCACCTGGTGGCATTCAGAGCCAGATATCATCTTGTGGACAAGGAACATGACAGGTATTATATTATGAGCTACTGGCAATTCGAGAAGCCTGTATCAGTTTGGAAAAAGACTATCAACCTGGAATAACCTACATTGTTGTTCAGAAGAGACATC
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-103-3p(1), mmu-miR-138-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-149-5p(1), mmu-miR-107-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGAACATGACAGGTATTATATTATG
siRNA sets
TAATACCTGTCATGTTCCT, AATATAATACCTGTCATGT, ATAATACCTGTCATGTTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAGO3_437_ORF_1
0.9571
-0.02790398
0.147091423
255
ORF sequence:
ATGAATTCGACTTTTATCTCTGTAGCCATGCTGGAATACAGGGTACCAGCCGTCCTTCACACTATCATGTTTTATGGGATGACAACTTCTTTACTGCAGATGAACTTCAGCTGCTCACTTACCAGCTCTGTCACACTTACGTACGCTGTACAAGATCTGTTTCTATCCCTGCACCAGCATATTACGCTCACCTGGTGGCATTCAGAGCCAGATATCATCTTGTGGACAAGGAACATGACAGGTATTATATTATGA
Peptide sequence:
MNSTFISVAMLEYRVPAVLHTIMFYGMTTSLLQMNFSCSLTSSVTLTYAVQDLFLSLHQHITLTWWHSEPDIILWTRNMTGIIL
IRESfinder result
IRESfinder score
0.683801928
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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