top of page
mmu_circZmynd8_715
Basic information of circular RNA
PanCircBase ID:
mmu_circZmynd8_715
mm39_Chr. Position ID:
chr2|165679200|165717695|-
Gene name:
Zmynd8
Transcript:
ENSMUST00000177633.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
8,7,6,5,4,3,2
Exon/intron offsets:
0,1531,2717,5483,8740,14719,38424
Genomic length:
38495
Exon/intron sizes in nt:
56,88,93,114,144,149,71
Flanking exon/introns:
chr2:165676887-165679200|chr2:165717695-165726527
Splice length:
715
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_34457
Human Ortholog IDs:
Mature spliced Sequence:
CTTGGCTGAAGAGGAAATAAAAACCGAGCAGGAGGTGGTGGAGGGAATGGATATCTCTACTCGCTCCAAAGATCCTGTCTCTACAGAGAAAACGGCCCCGAAACGGAGGTTCCCCAGCCCTCCACATTCCTCCAATGGCCATTCGCCCCAAGACTCATCCACGAGCCCCATTAAAAAGAAAAAGAAACCCGGCTTACTCAACAGTAGCAATAAGGAACAGGACGGACGGAATGACTTCTATTGCTGGGTTTGTCACCGGGAAGGACAAGTCCTTTGCTGTGAGCTCTGTCCCCGGGTTTATCACGCTAAGTGTCTGAGACTGACATCGGAGCCAGAGGGGGACTGGTTTTGTCCTGAATGTGAGAAGATTACAGTAGCAGAATGCATCGAGACGCAGAGCAAAGCCATGACCATGCTGACCATTGAACAACTGTCCTACCTGCTCAAGTTTGCCATTCAGAAAATGAAGCAGCCAGGGACGGATGCATTCCAGAAGCCTGTTCCATTGGAGCAACACCCTGACTATGCAGAATATATTTTCCACCCCATGGACCTTTGTACATTGGAAAAGAATGCAAAAAAGAAGATGTACGGCTGCACAGAAGCCTTCCTGGCCGATGCCAAGTGGATCCTGCACAACTGCATTATTTATAATGGGGGAAATCACAAGTTGACGCAAATAGCAAAAGTCGTCATCAAAATCTGTGAGCACGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GATGCCAAGTGGATCCTGCA
60.39
ATCCATTCCCTCCACCACCT
60.25
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGGATCCTGCACAACTGC
60.61
ATCCATTCCCTCCACCACCT
60.25
144
PCR template sequence:
CGATGCCAAGTGGATCCTGCACAACTGCATTATTTATAATGGGGGAAATCACAAGTTGACGCAAATAGCAAAAGTCGTCATCAAAATCTGTGAGCACGAGCTTGGCTGAAGAGGAAATAAAAACCGAGCAGGAGGTGGTGGAGGGAATGGATATCTCTACTCGCTCCAAAGATCCTGTCTCTACAGAGAAAACGGCCCCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-181a-5p(1), mmu-let-7e-5p(1), mmu-miR-135a-5p(1), mmu-miR-149-5p(1), mmu-miR-153-3p(1), mmu-miR-129-5p(1), mmu-miR-452-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
CTGTGAGCACGAGCTTGGCTGAAGAG
siRNA sets
TCTTCAGCCAAGCTCGTGC, CTTCAGCCAAGCTCGTGCT, CTCTTCAGCCAAGCTCGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZMYND8_715_ORF_1
0.7789
0.227103608
0.880072363
678
ORF sequence:
ATGGATATCTCTACTCGCTCCAAAGATCCTGTCTCTACAGAGAAAACGGCCCCGAAACGGAGGTTCCCCAGCCCTCCACATTCCTCCAATGGCCATTCGCCCCAAGACTCATCCACGAGCCCCATTAAAAAGAAAAAGAAACCCGGCTTACTCAACAGTAGCAATAAGGAACAGGACGGACGGAATGACTTCTATTGCTGGGTTTGTCACCGGGAAGGACAAGTCCTTTGCTGTGAGCTCTGTCCCCGGGTTTATCACGCTAAGTGTCTGAGACTGACATCGGAGCCAGAGGGGGACTGGTTTTGTCCTGAATGTGAGAAGATTACAGTAGCAGAATGCATCGAGACGCAGAGCAAAGCCATGACCATGCTGACCATTGAACAACTGTCCTACCTGCTCAAGTTTGCCATTCAGAAAATGAAGCAGCCAGGGACGGATGCATTCCAGAAGCCTGTTCCATTGGAGCAACACCCTGACTATGCAGAATATATTTTCCACCCCATGGACCTTTGTACATTGGAAAAGAATGCAAAAAAGAAGATGTACGGCTGCACAGAAGCCTTCCTGGCCGATGCCAAGTGGATCCTGCACAACTGCATTATTTATAATGGGGGAAATCACAAGTTGACGCAAATAGCAAAAGTCGTCATCAAAATCTGTGAGCACGAGCTTGGCTGA
Peptide sequence:
MDISTRSKDPVSTEKTAPKRRFPSPPHSSNGHSPQDSSTSPIKKKKKPGLLNSSNKEQDGRNDFYCWVCHREGQVLCCELCPRVYHAKCLRLTSEPEGDWFCPECEKITVAECIETQSKAMTMLTIEQLSYLLKFAIQKMKQPGTDAFQKPVPLEQHPDYAEYIFHPMDLCTLEKNAKKKMYGCTEAFLADAKWILHNCIIYNGGNHKLTQIAKVVIKICEHELG
IRESfinder result
IRESfinder score
0.434702504
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page