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mmu_circZdhhc20_511
Basic information of circular RNA
PanCircBase ID:
mmu_circZdhhc20_511
mm39_Chr. Position ID:
chr14|58076546|58087637|-
Gene name:
Zdhhc20
Transcript:
ENSMUST00000226057.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
12,11,10,9,8
Exon/intron offsets:
0,1739,4098,7831,11055
Genomic length:
11091
Exon/intron sizes in nt:
116,90,127,142,36
Flanking exon/introns:
chr14:58075124-58076546|chr14:58087637-58094066
Splice length:
511
Other database IDs:
circBase: mmu_circ_0005310, CIRCpedia: MMU_CIRCpedia_23986, circAtlas: mmu-Zdhhc20_0013
circAtlas: hsa-ZDHHC20_0017
Human Ortholog IDs:
Mature spliced Sequence:
CTTTGCCGCAGGAAATCTACAGAGAATTGCCCAAAGAATGAACCAACAGTTTTAAATTTCCCCAGCGCAAAGTTCCACGTACTGTTCCTTTTTTTTGTGTCTGCAATGTTCTTCGTCAGTGTGCTCTCACTATTTAGCTACCATTGCTGGCTGGTTGGAAAAAATAGAACGACAATAGAATCATTTCGTGCACCTATGTTTTCTTATGGAATAGATGGAAATGGTTTCTCTCTTGGATGCAGTAAAAATTGGAGACAAGTCTTTGGTGATGAAAAGAAATATTGGCTAGTTCCAATATTCTCAAGTTTGGGTGATGGTTGCAGTTTTCCAGCTCGCCTTGTGGGGATGGATCCAGAACAAGCTTCTGTTGCAAACCAGAGTGACTACGTCAGAAGTATTGGCTCAAATCAACCTTTTCCTATCAAACCACTTAGTGAATCAAAAAACCGCTTATTGGACAGTGAATCTCAGTGGCTAGAGAATGGAGCTGAAGAAGGAGTCACCAAATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCGCTTATTGGACAGTGAA
57.15
GTACGTGGAACTTTGCGCTG
60.11
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCGCTTATTGGACAGTGAA
57.15
CAGTACGTGGAACTTTGCGC
60.11
150
PCR template sequence:
CCTTTTCCTATCAAACCACTTAGTGAATCAAAAAACCGCTTATTGGACAGTGAATCTCAGTGGCTAGAGAATGGAGCTGAAGAAGGAGTCACCAAATCAGCTTTGCCGCAGGAAATCTACAGAGAATTGCCCAAAGAATGAACCAACAGTTTTAAATTTCCCCAGCGCAAAGTTCCACGTACTGTTCCTTTTTTTTGTGT
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-101a-3p(1), mmu-miR-217-5p(1), mmu-miR-29b-1-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCACCAAATCAGCTTTGCCGCAGGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZDHHC20_511_ORF_1
0.5476
-0.03986899
0.374049858
540
ORF sequence:
ATGGAGCTGAAGAAGGAGTCACCAAATCAGCTTTGCCGCAGGAAATCTACAGAGAATTGCCCAAAGAATGAACCAACAGTTTTAAATTTCCCCAGCGCAAAGTTCCACGTACTGTTCCTTTTTTTTGTGTCTGCAATGTTCTTCGTCAGTGTGCTCTCACTATTTAGCTACCATTGCTGGCTGGTTGGAAAAAATAGAACGACAATAGAATCATTTCGTGCACCTATGTTTTCTTATGGAATAGATGGAAATGGTTTCTCTCTTGGATGCAGTAAAAATTGGAGACAAGTCTTTGGTGATGAAAAGAAATATTGGCTAGTTCCAATATTCTCAAGTTTGGGTGATGGTTGCAGTTTTCCAGCTCGCCTTGTGGGGATGGATCCAGAACAAGCTTCTGTTGCAAACCAGAGTGACTACGTCAGAAGTATTGGCTCAAATCAACCTTTTCCTATCAAACCACTTAGTGAATCAAAAAACCGCTTATTGGACAGTGAATCTCAGTGGCTAGAGAATGGAGCTGAAGAAGGAGTCACCAAATCA
Peptide sequence:
MELKKESPNQLCRRKSTENCPKNEPTVLNFPSAKFHVLFLFFVSAMFFVSVLSLFSYHCWLVGKNRTTIESFRAPMFSYGIDGNGFSLGCSKNWRQVFGDEKKYWLVPIFSSLGDGCSFPARLVGMDPEQASVANQSDYVRSIGSNQPFPIKPLSESKNRLLDSESQWLENGAEEGVTKS
IRESfinder result
IRESfinder score
0.729145821
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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