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mmu_circZmym2_1202
Basic information of circular RNA
PanCircBase ID:
mmu_circZmym2_1202
mm39_Chr. Position ID:
chr14|57181522|57195759|+
Gene name:
Zmym2
Transcript:
ENSMUST00000022511.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
16,17,18,19,20,21,22,23
Exon/intron offsets:
0,2425,3881,5444,6111,12114,12786,14116
Genomic length:
14237
Exon/intron sizes in nt:
17,21,26,95,16,91,52,10,00,00,000
Flanking exon/introns:
chr14:57180825-57181522|chr14:57195759-57197171
Splice length:
1202
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_10284
Human Ortholog IDs:
Mature spliced Sequence:
GTGCCCGTTCCTGTGTTTCTGCCTGCTCCATTGGACAGCAGTGAGAAGATTCCTGCCACAGTTGAGGACCTCAAAAGCAAAGTTTCTTCAGATCCTCTTGATTCAGAATTGCTTACGATGACAGATATGATGACTGAAGAGGAGGGGAAAGCAGAGGCATCCAACATCAATAGTGTAATTATTGAGACAGACATAATTGGCTCAGATCTTACAAAGAACTCTGACCCAGATATACAATCCAACATGCCCGATGTACCATATGAACCAGATTTGGATATTGAAATAGATTTCCCCAGAGCTGCAGAGGAGCTTGATATGGAAAATGAGTTTTTATTACCACCTGTTTTTGGAGAAGAATACGAGGAGCAGCCCAGACCTCGATCTAAAAAAAAGGGAACCAAGAGGAAGGCTGTATCAGGATACCAGTCTCATGATGATAGTTCTGACAATTCAGAATGCAGCTTTCCTTTCAAGTATACATACGGTGTAAATGCGTGGAAACATTGGGTCAAAACTAGGCAACTTGATGAAGATCTTCTGGTATTAGATGAGCTAAAATCCTCTAAATCAGTAAAGTTAAAAGAAGATCTACTCTCTCATACCACAGCTGAGCTTAACTATGGGTTAGCCCATTTTGTCAATGAGATCAGACGACCAAATGGAGAGAATTATGCACCTGACAGCATCTATTATCTATGCCTTGGTATACAGGAGTACTTATGTGGTAGTAATCGAAAGGACAACATATTTATTGATCCAGGATACCAGATGTTTGAGCAAGAACTGAATAAAATACTCCGAAGTTGGCAACCAAGCATACTTCCAGATGGGTCAATTTTCTCTCGAGTTGAAGAAGACTATCTCTGGAGGATAAAACAACTAGGATCCCACTCTCCAGTAGCACTTTTGAATACCCTATTCTACTTTAACACTAAGTATTTTGGCCTGAAAACAGTGGAACAACACTTAAGACTTTCCTTTGGCACTGTGTTTAGGCATTGGAAAAAAAATCCTTTAACAATGGAAAATAAAGCATGTCTTCGCTATCAGGTGTCTTCCTTATGTGGAACAGACAATGAAGATAAAATTGCTACTGGAAAACGAAAACATGAAGATGATGAGCCAGTATTTGAACAAGTTGAAAACACAGCCAACCCTTCTAGATGTCCTGTGAAAATGTTTGAATGCTACTTGTCTAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACATGAAGATGATGAGCCAGT
57.07
GTCCTCAACTGTGGCAGGAA
59.89
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACATGAAGATGATGAGCCAGT
57.07
TTGAGGTCCTCAACTGTGGC
59.89
170
PCR template sequence:
GAAAACATGAAGATGATGAGCCAGTATTTGAACAAGTTGAAAACACAGCCAACCCTTCTAGATGTCCTGTGAAAATGTTTGAATGCTACTTGTCTAAAAGGTGCCCGTTCCTGTGTTTCTGCCTGCTCCATTGGACAGCAGTGAGAAGATTCCTGCCACAGTTGAGGACCTCAAAAGCAAAGTTTCTTCAGATCCTCTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-17-5p(1), mmu-miR-7b-5p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-106b-5p(1), mmu-miR-7a-5p(1), mmu-miR-320-3p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-5099(1), mmu-miR-540-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTTGTCTAAAAGGTGCCCGTTCCTG
siRNA sets
AACGGGCACCTTTTAGACA, GAACGGGCACCTTTTAGAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZMYM2_1202_ORF_1
0.7721
0.025704102
0.992927973
1206
ORF sequence:
ATGACAGATATGATGACTGAAGAGGAGGGGAAAGCAGAGGCATCCAACATCAATAGTGTAATTATTGAGACAGACATAATTGGCTCAGATCTTACAAAGAACTCTGACCCAGATATACAATCCAACATGCCCGATGTACCATATGAACCAGATTTGGATATTGAAATAGATTTCCCCAGAGCTGCAGAGGAGCTTGATATGGAAAATGAGTTTTTATTACCACCTGTTTTTGGAGAAGAATACGAGGAGCAGCCCAGACCTCGATCTAAAAAAAAGGGAACCAAGAGGAAGGCTGTATCAGGATACCAGTCTCATGATGATAGTTCTGACAATTCAGAATGCAGCTTTCCTTTCAAGTATACATACGGTGTAAATGCGTGGAAACATTGGGTCAAAACTAGGCAACTTGATGAAGATCTTCTGGTATTAGATGAGCTAAAATCCTCTAAATCAGTAAAGTTAAAAGAAGATCTACTCTCTCATACCACAGCTGAGCTTAACTATGGGTTAGCCCATTTTGTCAATGAGATCAGACGACCAAATGGAGAGAATTATGCACCTGACAGCATCTATTATCTATGCCTTGGTATACAGGAGTACTTATGTGGTAGTAATCGAAAGGACAACATATTTATTGATCCAGGATACCAGATGTTTGAGCAAGAACTGAATAAAATACTCCGAAGTTGGCAACCAAGCATACTTCCAGATGGGTCAATTTTCTCTCGAGTTGAAGAAGACTATCTCTGGAGGATAAAACAACTAGGATCCCACTCTCCAGTAGCACTTTTGAATACCCTATTCTACTTTAACACTAAGTATTTTGGCCTGAAAACAGTGGAACAACACTTAAGACTTTCCTTTGGCACTGTGTTTAGGCATTGGAAAAAAAATCCTTTAACAATGGAAAATAAAGCATGTCTTCGCTATCAGGTGTCTTCCTTATGTGGAACAGACAATGAAGATAAAATTGCTACTGGAAAACGAAAACATGAAGATGATGAGCCAGTATTTGAACAAGTTGAAAACACAGCCAACCCTTCTAGATGTCCTGTGAAAATGTTTGAATGCTACTTGTCTAAAAGGTGCCCGTTCCTGTGTTTCTGCCTGCTCCATTGGACAGCAGTGAGAAGATTCCTGCCACAGTTGAGGACCTCAAAAGCAAAGTTTCTTCAGATCCTCTTGATTCAGAATTGCTTACGATGA
Peptide sequence:
MTDMMTEEEGKAEASNINSVIIETDIIGSDLTKNSDPDIQSNMPDVPYEPDLDIEIDFPRAAEELDMENEFLLPPVFGEEYEEQPRPRSKKKGTKRKAVSGYQSHDDSSDNSECSFPFKYTYGVNAWKHWVKTRQLDEDLLVLDELKSSKSVKLKEDLLSHTTAELNYGLAHFVNEIRRPNGENYAPDSIYYLCLGIQEYLCGSNRKDNIFIDPGYQMFEQELNKILRSWQPSILPDGSIFSRVEEDYLWRIKQLGSHSPVALLNTLFYFNTKYFGLKTVEQHLRLSFGTVFRHWKKNPLTMENKACLRYQVSSLCGTDNEDKIATGKRKHEDDEPVFEQVENTANPSRCPVKMFECYLSKRCPFLCFCLLHWTAVRRFLPQLRTSKAKFLQILLIQNCLR
IRESfinder result
IRESfinder score
0.706568898
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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