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mmu_circZdhhc20_745
Basic information of circular RNA
PanCircBase ID:
mmu_circZdhhc20_745
mm39_Chr. Position ID:
chr14|58080644|58115916|-
Gene name:
Zdhhc20
Transcript:
ENSMUST00000089473.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
9,8,7,6,5,4,3,2
Exon/intron offsets:
0,3733,13422,14440,15352,22333,30705,35245
Genomic length:
35272
Exon/intron sizes in nt:
127,142,121,33,70,121,104,27
Flanking exon/introns:
chr14:58078375-58080644|chr14:58115916-58127519
Splice length:
745
Other database IDs:
circAtlas: mmu-Zdhhc20_0004
circBase: hsa_circ_0100059, circAtlas: hsa-ZDHHC20_0004, CIRCpedia: HSA_CIRCpedia_10355
Human Ortholog IDs:
Mature spliced Sequence:
GTACTATTTCCAGAACAGGAGAGAAAGGAAAGACCGTTGTTTACCTTGTGGCTTTCCATCTGTTCTTTGTTATGTTTGTATGGTCTTATTGGATGACAATATTCACGTCTCCTGCTAGCCCTTCCAAAGAGTTCTACTTGTCAAACTCTGAGAAGGAGCGTTATGAGAAGGAGTTCAGCCAAGAAAGACAGCAAGACATTTTGAGAAGAGCGGCAAGAGACCTGCCTATCTACACCACATCAGCTTCAAAGGCTATCCGATATTGTGAAAAATGTCAGTTGATTAAACCTGACCGAGCCCATCACTGCTCAGCATGTGACAGATGTGTTCTTAAGATGGATCATCACTGTCCATGGGTGAATAACTGTGTGGGATTTACTAATTACAAATTCTTCATGCTGTTTTTGTTGTATTCTCTACTATATTGCCTTTTTGTGGCTGCAACAGTTTTAGAGTATTTTATAAAATTTTGGACGAATGAACCAACAGTTTTAAATTTCCCCAGCGCAAAGTTCCACGTACTGTTCCTTTTTTTTGTGTCTGCAATGTTCTTCGTCAGTGTGCTCTCACTATTTAGCTACCATTGCTGGCTGGTTGGAAAAAATAGAACGACAATAGAATCATTTCGTGCACCTATGTTTTCTTATGGAATAGATGGAAATGGTTTCTCTCTTGGATGCAGTAAAAATTGGAGACAAGTCTTTGGTGATGAAAAGAAATATTGGCTAGTTCCAATATTCTCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGGTTTCTCTCTTGGATGCAGT
59.99
AAAGCCACAAGGTAAACAACGG
59.9
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAATGGTTTCTCTCTTGGATGC
60.14
GCCACAAGGTAAACAACGGTC
60
141
PCR template sequence:
ATGGAATAGATGGAAATGGTTTCTCTCTTGGATGCAGTAAAAATTGGAGACAAGTCTTTGGTGATGAAAAGAAATATTGGCTAGTTCCAATATTCTCAAGGTACTATTTCCAGAACAGGAGAGAAAGGAAAGACCGTTGTTTACCTTGTGGCTTTCCATCTGTTCTTTGTTATGTTTGTATGGTCTTATTGGATGACAAT
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-101a-3p(1), mmu-miR-217-5p(1), mmu-miR-138-5p(1), mmu-miR-431-5p(1), mmu-miR-182-5p(1), mmu-miR-342-3p(1), mmu-miR-410-3p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAATATTCTCAAGGTACTATTTCCAG
siRNA sets
CTGGAAATAGTACCTTGAG,AATAGTACCTTGAGAATAT,AAATAGTACCTTGAGAATA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZDHHC20_745_ORF_1
0.3851
-0.155936409
0.626200162
792
ORF sequence:
ATGTTTGTATGGTCTTATTGGATGACAATATTCACGTCTCCTGCTAGCCCTTCCAAAGAGTTCTACTTGTCAAACTCTGAGAAGGAGCGTTATGAGAAGGAGTTCAGCCAAGAAAGACAGCAAGACATTTTGAGAAGAGCGGCAAGAGACCTGCCTATCTACACCACATCAGCTTCAAAGGCTATCCGATATTGTGAAAAATGTCAGTTGATTAAACCTGACCGAGCCCATCACTGCTCAGCATGTGACAGATGTGTTCTTAAGATGGATCATCACTGTCCATGGGTGAATAACTGTGTGGGATTTACTAATTACAAATTCTTCATGCTGTTTTTGTTGTATTCTCTACTATATTGCCTTTTTGTGGCTGCAACAGTTTTAGAGTATTTTATAAAATTTTGGACGAATGAACCAACAGTTTTAAATTTCCCCAGCGCAAAGTTCCACGTACTGTTCCTTTTTTTTGTGTCTGCAATGTTCTTCGTCAGTGTGCTCTCACTATTTAGCTACCATTGCTGGCTGGTTGGAAAAAATAGAACGACAATAGAATCATTTCGTGCACCTATGTTTTCTTATGGAATAGATGGAAATGGTTTCTCTCTTGGATGCAGTAAAAATTGGAGACAAGTCTTTGGTGATGAAAAGAAATATTGGCTAGTTCCAATATTCTCAAGGTACTATTTCCAGAACAGGAGAGAAAGGAAAGACCGTTGTTTACCTTGTGGCTTTCCATCTGTTCTTTGTTATGTTTGTATGGTCTTATTGGATGACAATATTCACGTCTCCTGCTAG
Peptide sequence:
MFVWSYWMTIFTSPASPSKEFYLSNSEKERYEKEFSQERQQDILRRAARDLPIYTTSASKAIRYCEKCQLIKPDRAHHCSACDRCVLKMDHHCPWVNNCVGFTNYKFFMLFLLYSLLYCLFVAATVLEYFIKFWTNEPTVLNFPSAKFHVLFLFFVSAMFFVSVLSLFSYHCWLVGKNRTTIESFRAPMFSYGIDGNGFSLGCSKNWRQVFGDEKKYWLVPIFSRYYFQNRRERKDRCLPCGFPSVLCYVCMVLLDDNIHVSC
IRESfinder result
IRESfinder score
0.797046093
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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