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mmu_circZmynd8_823
Basic information of circular RNA
PanCircBase ID:
mmu_circZmynd8_823
mm39_Chr. Position ID:
chr2|165662461|165676887|-
Gene name:
Zmynd8
Transcript:
ENSMUST00000109266.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
11,10,9,8
Exon/intron offsets:
0,7666,12767,14348
Genomic length:
14426
Exon/intron sizes in nt:
147,482,116,78
Flanking exon/introns:
chr2:165657389-165662461|chr2:165676887-165679200
Splice length:
823
Other database IDs:
CIRCpedia: MMU_CIRCpedia_222953, circAtlas: mmu-Zmynd8_0043
circBase: hsa_circ_0060611, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_34428
Human Ortholog IDs:
Mature spliced Sequence:
ATGAATGAAATCGAAGTCTGTCCAGAATGTTATCTTGCAGCTTGCCAAAAACGAGACAACTGGTTCTGTGAGCCCTGTAGCAATCCGCACCCTTTGGTCTGGGCAAAACTGAAAGGATTTCCATTCTGGCCAGCGAAAGCTCTGAGGGACAAAGACGGGCAGGTTGACGCCCGTTTCTTTGGACAACATGACAGAGCCTGGGTTCCAGTCAATAATTGCTACCTCATGTCTAAAGAAATCCCCTTTTCTGTGAAAAAGACTAAAAGTATCTTCAACAGCGCCATGCAAGAGATGGAAGTTTACGTGGAGAACATACGGAGGAAGTTTGGGGTTTTTAATTACTCCCCGTTCAGGACGCCCTACACGCCCAACAACCAGTACCAAATGCTGCTGGATCCCAGCAACCCCAGCGCGGGCACAGCCAAGACAGACAAACAGGAGAAGGTGAAGCTTAATTTTGACATGACAGCGTCCCCCAAGATCCTTCTGAGCAAGCCCCTTCTGAGCGGGGGTGCCGGCCGCAGGATCTCCCTGTCCGACATGCCTCGCTCCCCCACCAGTACGAACTCTTCCGTGCACACGGGCTCCGATGTGGAGCAGGACCCCGAGAAGAAGGCCCCGTCCAGCCACTTCAGCGCAAGCGAGGAGTCCATGGACTTCCTTGATAAGAGCACAGCTTCTCCAGCCTCCACCAAGACGGGGCAAGCCGGGAGCTTGTCTGGCAGCCCAAAGCCTTTCTCTCCGCAAGCGCCGACACCCATCATGACAAAACCCGACAAGACTTCCACCTCCACCACCGGGAGCATCCTGAACCTGAACTTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCCAAAGCCTTTCTCTCC
59.96
TCTCGTTTTTGGCAAGCTGC
59.97
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCGACAAGACTTCCACCTCC
60.04
AAAGGGTGCGGATTGCTACA
59.96
146
PCR template sequence:
AGCCCAAAGCCTTTCTCTCCGCAAGCGCCGACACCCATCATGACAAAACCCGACAAGACTTCCACCTCCACCACCGGGAGCATCCTGAACCTGAACTTGGATGAATGAAATCGAAGTCTGTCCAGAATGTTATCTTGCAGCTTGCCAAAAACGAGACAACTGGTTCTGTGAGCCCTGTAGCAATCCGCACCCTTTGGTCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-miR-16-5p(1), mmu-miR-103-3p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-322-5p(1), mmu-miR-185-5p(1), mmu-let-7d-5p(1), mmu-miR-433-3p(1), mmu-miR-182-5p(1), mmu-miR-107-3p(1), mmu-miR-98-5p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
AACCTGAACTTGGATGAATGAAATCG
siRNA sets
TTTCATTCATCCAAGTTCA, ATTTCATTCATCCAAGTTC, TTCATTCATCCAAGTTCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZMYND8_823_ORF_1
0.9703
0.297877062
0.976739841
831
ORF sequence:
ATGAATGAAATCGAAGTCTGTCCAGAATGTTATCTTGCAGCTTGCCAAAAACGAGACAACTGGTTCTGTGAGCCCTGTAGCAATCCGCACCCTTTGGTCTGGGCAAAACTGAAAGGATTTCCATTCTGGCCAGCGAAAGCTCTGAGGGACAAAGACGGGCAGGTTGACGCCCGTTTCTTTGGACAACATGACAGAGCCTGGGTTCCAGTCAATAATTGCTACCTCATGTCTAAAGAAATCCCCTTTTCTGTGAAAAAGACTAAAAGTATCTTCAACAGCGCCATGCAAGAGATGGAAGTTTACGTGGAGAACATACGGAGGAAGTTTGGGGTTTTTAATTACTCCCCGTTCAGGACGCCCTACACGCCCAACAACCAGTACCAAATGCTGCTGGATCCCAGCAACCCCAGCGCGGGCACAGCCAAGACAGACAAACAGGAGAAGGTGAAGCTTAATTTTGACATGACAGCGTCCCCCAAGATCCTTCTGAGCAAGCCCCTTCTGAGCGGGGGTGCCGGCCGCAGGATCTCCCTGTCCGACATGCCTCGCTCCCCCACCAGTACGAACTCTTCCGTGCACACGGGCTCCGATGTGGAGCAGGACCCCGAGAAGAAGGCCCCGTCCAGCCACTTCAGCGCAAGCGAGGAGTCCATGGACTTCCTTGATAAGAGCACAGCTTCTCCAGCCTCCACCAAGACGGGGCAAGCCGGGAGCTTGTCTGGCAGCCCAAAGCCTTTCTCTCCGCAAGCGCCGACACCCATCATGACAAAACCCGACAAGACTTCCACCTCCACCACCGGGAGCATCCTGAACCTGAACTTGGATGAATGA
Peptide sequence:
MNEIEVCPECYLAACQKRDNWFCEPCSNPHPLVWAKLKGFPFWPAKALRDKDGQVDARFFGQHDRAWVPVNNCYLMSKEIPFSVKKTKSIFNSAMQEMEVYVENIRRKFGVFNYSPFRTPYTPNNQYQMLLDPSNPSAGTAKTDKQEKVKLNFDMTASPKILLSKPLLSGGAGRRISLSDMPRSPTSTNSSVHTGSDVEQDPEKKAPSSHFSASEESMDFLDKSTASPASTKTGQAGSLSGSPKPFSPQAPTPIMTKPDKTSTSTTGSILNLNLDE
IRESfinder result
IRESfinder score
0.443717358
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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