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mmu_circZmym2_416
Basic information of circular RNA
PanCircBase ID:
mmu_circZmym2_416
mm39_Chr. Position ID:
chr14|57185403|57187785|+
Gene name:
Zmym2
Transcript:
ENSMUST00000022511.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
18,19,20
Exon/intron offsets:
0,1563,2230
Genomic length:
2382
Exon/intron sizes in nt:
95,169,152
Flanking exon/introns:
chr14:57184073-57185403|chr14:57187785-57193636
Splice length:
416
Other database IDs:
circBase: mmu_circ_0005304, CIRCpedia: MMU_CIRCpedia_23708, circAtlas: mmu-Zmym2_0002
circBase: hsa_circ_0000465, circAtlas: hsa-ZMYM2_0003, CIRCpedia: HSA_CIRCpedia_10287
Human Ortholog IDs:
Mature spliced Sequence:
CTGCAGAGGAGCTTGATATGGAAAATGAGTTTTTATTACCACCTGTTTTTGGAGAAGAATACGAGGAGCAGCCCAGACCTCGATCTAAAAAAAAGGGAACCAAGAGGAAGGCTGTATCAGGATACCAGTCTCATGATGATAGTTCTGACAATTCAGAATGCAGCTTTCCTTTCAAGTATACATACGGTGTAAATGCGTGGAAACATTGGGTCAAAACTAGGCAACTTGATGAAGATCTTCTGGTATTAGATGAGCTAAAATCCTCTAAATCAGTAAAGTTAAAAGAAGATCTACTCTCTCATACCACAGCTGAGCTTAACTATGGGTTAGCCCATTTTGTCAATGAGATCAGACGACCAAATGGAGAGAATTATGCACCTGACAGCATCTATTATCTATGCCTTGGTATACAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGACGACCAAATGGAGAGA
58.47
CTGGGCTGCTCCTCGTATTC
60.25
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGACGACCAAATGGAGAGA
58.47
GGGCTGCTCCTCGTATTCTT
59.53
142
PCR template sequence:
TAACTATGGGTTAGCCCATTTTGTCAATGAGATCAGACGACCAAATGGAGAGAATTATGCACCTGACAGCATCTATTATCTATGCCTTGGTATACAGGAGCTGCAGAGGAGCTTGATATGGAAAATGAGTTTTTATTACCACCTGTTTTTGGAGAAGAATACGAGGAGCAGCCCAGACCTCGATCTAAAAAAAAGGGAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-320-3p(1), mmu-miR-136-5p(1), mmu-miR-5099(1)
siRNAs for circular RNA silencing
Junction sequence
TGGTATACAGGAGCTGCAGAGGAGCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZMYM2_416_ORF_1
0.6794
0.007956412
0.574011728
591
ORF sequence:
ATGGAAAATGAGTTTTTATTACCACCTGTTTTTGGAGAAGAATACGAGGAGCAGCCCAGACCTCGATCTAAAAAAAAGGGAACCAAGAGGAAGGCTGTATCAGGATACCAGTCTCATGATGATAGTTCTGACAATTCAGAATGCAGCTTTCCTTTCAAGTATACATACGGTGTAAATGCGTGGAAACATTGGGTCAAAACTAGGCAACTTGATGAAGATCTTCTGGTATTAGATGAGCTAAAATCCTCTAAATCAGTAAAGTTAAAAGAAGATCTACTCTCTCATACCACAGCTGAGCTTAACTATGGGTTAGCCCATTTTGTCAATGAGATCAGACGACCAAATGGAGAGAATTATGCACCTGACAGCATCTATTATCTATGCCTTGGTATACAGGAGCTGCAGAGGAGCTTGATATGGAAAATGAGTTTTTATTACCACCTGTTTTTGGAGAAGAATACGAGGAGCAGCCCAGACCTCGATCTAAAAAAAAGGGAACCAAGAGGAAGGCTGTATCAGGATACCAGTCTCATGATGATAGTTCTGACAATTCAGAATGCAGCTTTCCTTTCAAGTATACATACGGTGTAA
Peptide sequence:
MENEFLLPPVFGEEYEEQPRPRSKKKGTKRKAVSGYQSHDDSSDNSECSFPFKYTYGVNAWKHWVKTRQLDEDLLVLDELKSSKSVKLKEDLLSHTTAELNYGLAHFVNEIRRPNGENYAPDSIYYLCLGIQELQRSLIWKMSFYYHLFLEKNTRSSPDLDLKKREPRGRLYQDTSLMMIVLTIQNAAFLSSIHTV
IRESfinder result
IRESfinder score
0.665095073
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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