top of page
mmu_circZmynd8_272
Basic information of circular RNA
PanCircBase ID:
mmu_circZmynd8_272
mm39_Chr. Position ID:
chr2|165639853|165647297|-
Gene name:
Zmynd8
Transcript:
ENSMUST00000109266.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
16,15
Exon/intron offsets:
0,7253
Genomic length:
7444
Exon/intron sizes in nt:
81,191
Flanking exon/introns:
chr2:165638081-165639853|chr2:165647297-165649594
Splice length:
272
Other database IDs:
circAtlas: mmu-Zmynd8_0028
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_34412
Human Ortholog IDs:
Mature spliced Sequence:
CTGTCCAGCAGAAGGAGGTCACCCAGAGCCCATCCACGTCCACCATCACGCTGGTGACCAGCACACAGCCGGCAGCCCTGGTCAGCAGTTCGGGCTCAGCAAGCACCCTGGCGTCTGCAATCAATGCCGACCTTCCCATTGCCACCGCCTCGGCCGACGTGGCCGCAGACATTGCCAAGTACACCAGCAAAATGATGGATGCCATAAAGGGGACGATGACAGAAATCTACAATGACCTCTCCAAGAACACCACTGGGAGCACAATAGCTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGATGCCATAAAGGGGACG
59.82
GAACTGCTGACCAGGGCTG
60.67
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGATGCCATAAAGGGGACG
59.82
CTGAGCCCGAACTGCTGAC
60.74
176
PCR template sequence:
TGCCAAGTACACCAGCAAAATGATGGATGCCATAAAGGGGACGATGACAGAAATCTACAATGACCTCTCCAAGAACACCACTGGGAGCACAATAGCTGAGCTGTCCAGCAGAAGGAGGTCACCCAGAGCCCATCCACGTCCACCATCACGCTGGTGACCAGCACACAGCCGGCAGCCCTGGTCAGCAGTTCGGGCTCAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-326-3p(1), mmu-miR-182-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CACAATAGCTGAGCTGTCCAGCAGAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZMYND8_272_ORF_1
0.8152
0.12648018
0.097361313
138
ORF sequence:
ATGATGGATGCCATAAAGGGGACGATGACAGAAATCTACAATGACCTCTCCAAGAACACCACTGGGAGCACAATAGCTGAGCTGTCCAGCAGAAGGAGGTCACCCAGAGCCCATCCACGTCCACCATCACGCTGGTGA
Peptide sequence:
MMDAIKGTMTEIYNDLSKNTTGSTIAELSSRRRSPRAHPRPPSRW
IRESfinder result
IRESfinder score
0.130368031
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page