top of page
mmu_circZmpste24_480
Basic information of circular RNA
PanCircBase ID:
mmu_circZmpste24_480
mm39_Chr. Position ID:
chr4|120931669|120940170|-
Gene name:
Zmpste24
Transcript:
ENSMUST00000058754.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,6,5
Exon/intron offsets:
0,6699,8348
Genomic length:
8501
Exon/intron sizes in nt:
18,51,42,153
Flanking exon/introns:
chr4:120926011-120931669|chr4:120940170-120940505
Splice length:
480
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ACTTTGGAGTTTTTTATGAAAGATGCAATCAAAAAATTTATTGTGACTCAATGTATTTTATTGCCTGTGTCTGCCCTTCTGCTTTACATTATTAAAATTGGAGGTGACTACTTTTTTATATATGCCTGGCTGTTCACATTAGTTGTTTCTCTGGTTCTTGTCACCATTTATGCTGACTATATTGCCCCTCTGTTTGACAAATTCACACCTCTACCGGAGGGAAAGCTTAAGCAGGAAATTGAAGTGATGGCAAAGAGTATTGACTTCCCTTTGACTAAGGTGTATGTTGTTGAAGGATCTAAGCGTTCCTCCCACAGCAATGCTTACTTTTATGGCTTCTTCAAGAACAAGAGAATAGTTTTGTTTGACACTCTACTAGAAGAGTACTCTGTACCAAACAAAGACAACCAGGAGGAGTCTGGCATGGAAGCCCGCAATGAAGGTGAAGGGGACAGTGAAGAAGTAAAAGCTAAAGTGAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATGGAAGCCCGCAATGAAG
59.9
AAAGCAGAAGGGCAGACACA
59.82
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATGGAAGCCCGCAATGAAG
59.9
AAGCAGAAGGGCAGACACAG
60.25
142
PCR template sequence:
AGAGTACTCTGTACCAAACAAAGACAACCAGGAGGAGTCTGGCATGGAAGCCCGCAATGAAGGTGAAGGGGACAGTGAAGAAGTAAAAGCTAAAGTGAAAACTTTGGAGTTTTTTATGAAAGATGCAATCAAAAAATTTATTGTGACTCAATGTATTTTATTGCCTGTGTCTGCCCTTCTGCTTTACATTATTAAAATTG
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-705(1), mmu-miR-207(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCTAAAGTGAAAACTTTGGAGTTTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZMPSTE24_480_ORF_1
0.9662
0.083179742
0.975654257
945
ORF sequence:
ATGAAAGATGCAATCAAAAAATTTATTGTGACTCAATGTATTTTATTGCCTGTGTCTGCCCTTCTGCTTTACATTATTAAAATTGGAGGTGACTACTTTTTTATATATGCCTGGCTGTTCACATTAGTTGTTTCTCTGGTTCTTGTCACCATTTATGCTGACTATATTGCCCCTCTGTTTGACAAATTCACACCTCTACCGGAGGGAAAGCTTAAGCAGGAAATTGAAGTGATGGCAAAGAGTATTGACTTCCCTTTGACTAAGGTGTATGTTGTTGAAGGATCTAAGCGTTCCTCCCACAGCAATGCTTACTTTTATGGCTTCTTCAAGAACAAGAGAATAGTTTTGTTTGACACTCTACTAGAAGAGTACTCTGTACCAAACAAAGACAACCAGGAGGAGTCTGGCATGGAAGCCCGCAATGAAGGTGAAGGGGACAGTGAAGAAGTAAAAGCTAAAGTGAAAACTTTGGAGTTTTTTATGAAAGATGCAATCAAAAAATTTATTGTGACTCAATGTATTTTATTGCCTGTGTCTGCCCTTCTGCTTTACATTATTAAAATTGGAGGTGACTACTTTTTTATATATGCCTGGCTGTTCACATTAGTTGTTTCTCTGGTTCTTGTCACCATTTATGCTGACTATATTGCCCCTCTGTTTGACAAATTCACACCTCTACCGGAGGGAAAGCTTAAGCAGGAAATTGAAGTGATGGCAAAGAGTATTGACTTCCCTTTGACTAAGGTGTATGTTGTTGAAGGATCTAAGCGTTCCTCCCACAGCAATGCTTACTTTTATGGCTTCTTCAAGAACAAGAGAATAGTTTTGTTTGACACTCTACTAGAAGAGTACTCTGTACCAAACAAAGACAACCAGGAGGAGTCTGGCATGGAAGCCCGCAATGAAGGTGAAGGGGACAGTGAAGAAGTAAAAGCTAAAGTGAAA
Peptide sequence:
MKDAIKKFIVTQCILLPVSALLLYIIKIGGDYFFIYAWLFTLVVSLVLVTIYADYIAPLFDKFTPLPEGKLKQEIEVMAKSIDFPLTKVYVVEGSKRSSHSNAYFYGFFKNKRIVLFDTLLEEYSVPNKDNQEESGMEARNEGEGDSEEVKAKVKTLEFFMKDAIKKFIVTQCILLPVSALLLYIIKIGGDYFFIYAWLFTLVVSLVLVTIYADYIAPLFDKFTPLPEGKLKQEIEVMAKSIDFPLTKVYVVEGSKRSSHSNAYFYGFFKNKRIVLFDTLLEEYSVPNKDNQEESGMEARNEGEGDSEEVKAKVK
IRESfinder result
IRESfinder score
0.813909269
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page