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mmu_circYme1l1_269
Basic information of circular RNA
PanCircBase ID:
mmu_circYme1l1_269
mm39_Chr. Position ID:
chr2|23081024|23082574|+
Gene name:
Yme1l1
Transcript:
ENSMUST00000028117.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
13,14
Exon/intron offsets:
0,1394
Genomic length:
1550
Exon/intron sizes in nt:
1,13,156
Flanking exon/introns:
chr2:23077854-23081024|chr2:23082574-23083099
Splice length:
269
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TGCCTTAATACGTCCTGGTCGTTTTGATATGCAAGTTACAGTTCCAAGGCCAGATGTGAAGGGTCGAACTGAAATTTTGAAATGGTATCTCAACAAGATAAAGTTTGATAAATCTGTTGATCCAGAAATCATAGCTCGAGGGACTGTTGGGTTCTCTGGAGCAGAGTTGGAGAATCTTGTGAACCAAGCTGCACTAAAGGCAGCAGTTGATGGAAAAGAAATGGTTACCATGAAGGAACTAGAGTTTTCCAAGGATAAAATTCTAATGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAAGCTGCACTAAAGGCA
60.18
TTCGACCCTTCACATCTGGC
60.04
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAAGCTGCACTAAAGGCA
60.18
ACCCTTCACATCTGGCCTTG
59.96
151
PCR template sequence:
GAGAATCTTGTGAACCAAGCTGCACTAAAGGCAGCAGTTGATGGAAAAGAAATGGTTACCATGAAGGAACTAGAGTTTTCCAAGGATAAAATTCTAATGGTGCCTTAATACGTCCTGGTCGTTTTGATATGCAAGTTACAGTTCCAAGGCCAGATGTGAAGGGTCGAACTGAAATTTTGAAATGGTATCTCAACAAGATA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-132-3p(1), mmu-miR-212-3p(1), mmu-miR-362-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
AAAATTCTAATGGTGCCTTAATACGT
siRNA sets
TATTAAGGCACCATTAGAA, ATTAAGGCACCATTAGAAT, TTAAGGCACCATTAGAATT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCYME1L1_269_ORF_1
1.0509
0.107094001
0.256038409
249
ORF sequence:
ATGCAAGTTACAGTTCCAAGGCCAGATGTGAAGGGTCGAACTGAAATTTTGAAATGGTATCTCAACAAGATAAAGTTTGATAAATCTGTTGATCCAGAAATCATAGCTCGAGGGACTGTTGGGTTCTCTGGAGCAGAGTTGGAGAATCTTGTGAACCAAGCTGCACTAAAGGCAGCAGTTGATGGAAAAGAAATGGTTACCATGAAGGAACTAGAGTTTTCCAAGGATAAAATTCTAATGGTGCCTTAA
Peptide sequence:
MQVTVPRPDVKGRTEILKWYLNKIKFDKSVDPEIIARGTVGFSGAELENLVNQAALKAAVDGKEMVTMKELEFSKDKILMVP
IRESfinder result
IRESfinder score
0.652904449
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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