top of page
mmu_circZdhhc5_1277
Basic information of circular RNA
PanCircBase ID:
mmu_circZdhhc5_1277
mm39_Chr. Position ID:
chr2|84532676|84541816|-
Gene name:
Zdhhc5
Transcript:
ENSMUST00000035840.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,7985
Genomic length:
9140
Exon/intron sizes in nt:
12,21,155
Flanking exon/introns:
chr2:84526744-84532676|chr2:84541816-84545326
Splice length:
1277
Other database IDs:
circAtlas: hsa-ZDHHC5_0006, CIRCpedia: HSA_CIRCpedia_4719
Human Ortholog IDs:
Mature spliced Sequence:
GTAAAGCACCATATCCCATCTGCATCCAGGAAGCCCAAGATTGAAGACAAAAGATCAGAGACATTGACTAACCTGGAAACAGGGACATCTTTGGAACTTTATCTACAGTAATCTTTTAAACTGTCATCAGGTGAAATCAACTTCATCTTATTCTGCTTATTGAAAAGGACATGGCTTCTTCAAGGATTTTAAATTTCCTTTTAGTTTTTTGTGAACTTTATGGGAAACAGAGCCCTTAAAAGGCTTGGGAATAACAAGAAGAGATTGAAAACAGGCAATACTGCTGTCTGTTTTTTTCTCCCCATTCAAAGAAAAGGATTTACAACTCAACCCTGTAACAGCTGTTATCCAACTTTGTCCATCAAGAGAGACATAAATAAAATTAAATCACCATTGCCAGCCAGCCAGCCCTGGTGAAGTTAAGGTGTGAGAGTGGTGGCATTGAGAAGACGGCCGGAAAGAGACGAGGACTGCAGTTAAAATAAATCAGCTTCTCTTTAAGCTGGAAGAGACCCCAAGTTCCTTCTCGGATTAAACTAGAAACCCAGGGCACACCTTTTAGGTGCTGCTCCTAGTGTGGTGTTGTGGAGGGGCTCTTGTATCTCCTCAGAAGAGTTAAAGCTTCCTGCCCTCCCCACCCCCTGATACTTCTGTCCTCCCTTTTGAAGACCTGCCTTCATCCATGAGCTATACCTTGATCTGCCTGACTCTGCATGGTTTCCACCTGCAACTGTTTGCATGCATACAGCCTACTGTTTGTCTTCACGTTTTAAACTGTACAAGTTGTGTTTCTTAATCTCCTTTTCTGCTCTATTCTGGGGAGGTGGTTTTTAATCAGTTGAAATCACCTTTCCCCCTCCCATGTGCTTTCCTTCATTTGAGATCTTTTGACCTTCATTTTTATTTGGGAGGGGGAAGGGTGATAATTATACATTTTCTGTTTTCCCCAGTTTCTTTCCTCTCTGTTTCCCTCATCCCATTTTCTTGTCTGTTCTGCCGCTGTGTGGGCCTGGGCTATGCGGCAGGGCACATCTTTCATCAGAGCTCCAACATGCCCGCAGAGTCTGGAAAGAGGTTCAAACCCAGCAAGTATGTACCGGTCTCAGCAGCCGCCATATTTCTAGTGGGAGCTACAACACTCTTCTTTGCCTTTACGTGTCCAGGACTAAGCCTGAATGTGTCACCTGCAGTGCCCATTTACAATGCAATTATGTTTCTCTTTGTGCTGGCCAACTTTAGCATGGCCACCTTTATGGACCCAGGAATTTTTCCCCGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCACCTGCAGTGCCCATTTA
59.6
TCAATCTTGGGCTTCCTGGA
58.63
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTGCAGTGCCCATTTACA
59.89
TTCAATCTTGGGCTTCCTGGA
59.29
140
PCR template sequence:
GTGTCACCTGCAGTGCCCATTTACAATGCAATTATGTTTCTCTTTGTGCTGGCCAACTTTAGCATGGCCACCTTTATGGACCCAGGAATTTTTCCCCGAGGTAAAGCACCATATCCCATCTGCATCCAGGAAGCCCAAGATTGAAGACAAAAGATCAGAGACATTGACTAACCTGGAAACAGGGACATCTTTGGAACTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-15b-5p(1), mmu-miR-33-5p(1), mmu-miR-185-5p(1), mmu-miR-381-3p(1), mmu-miR-434-3p(1), mmu-miR-362-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-342-3p(1), mmu-miR-296-3p(1), mmu-miR-202-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTTTTCCCCGAGGTAAAGCACCATA
siRNA sets
TATGGTGCTTTACCTCGGG, ATGGTGCTTTACCTCGGGG, TGGTGCTTTACCTCGGGGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZDHHC5_1277_ORF_1
1.0098
0.069776847
0.233039234
270
ORF sequence:
ATGCCCGCAGAGTCTGGAAAGAGGTTCAAACCCAGCAAGTATGTACCGGTCTCAGCAGCCGCCATATTTCTAGTGGGAGCTACAACACTCTTCTTTGCCTTTACGTGTCCAGGACTAAGCCTGAATGTGTCACCTGCAGTGCCCATTTACAATGCAATTATGTTTCTCTTTGTGCTGGCCAACTTTAGCATGGCCACCTTTATGGACCCAGGAATTTTTCCCCGAGGTAAAGCACCATATCCCATCTGCATCCAGGAAGCCCAAGATTGA
Peptide sequence:
MPAESGKRFKPSKYVPVSAAAIFLVGATTLFFAFTCPGLSLNVSPAVPIYNAIMFLFVLANFSMATFMDPGIFPRGKAPYPICIQEAQD
IRESfinder result
IRESfinder score
0.891190119
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page