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mmu_circZfc3h1_400
Basic information of circular RNA
PanCircBase ID:
mmu_circZfc3h1_400
mm39_Chr. Position ID:
chr10|115259109|115260557|+
Gene name:
Zfc3h1
Transcript:
ENSMUST00000036044.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
25,26,27
Exon/intron offsets:
0,179,1353
Genomic length:
1448
Exon/intron sizes in nt:
106,199,95
Flanking exon/introns:
chr10:115256784-115259109|chr10:115260557-115262940
Splice length:
400
Other database IDs:
circBase: hsa_circ_0099162, circAtlas: hsa-ZFC3H1_0011, CIRCpedia: HSA_CIRCpedia_9552
Human Ortholog IDs:
Mature spliced Sequence:
ATGCGGTGAAAGCTTGTACAGATGAGACCCTTACCAGTGGAGAAAGAATAGAGGTCTGCCTTCCACTTTACACAAACATGATCGCTCTACACCAACTCCTAGAGAGGTATGAGGAGGCAGTGGAGCTTTGCACAAGCTTGTTGGAGTCGTGTCCCACAAACTGCCAGTTATTGGAAACCCTTGCAGCTTTGTATTTGAAAACAGATCGATATGACAAAGCCCGAAGGGTTTGGCTTACTGCATTTGAAAATAACCCTCAGAATGCGGAAATTTTTTATCATCTCTGCAAATTTTTCATCTTGCAGGACGGAGGTGATAAGCTTCTTCCAGTTCTGAGGCAGTTCGTTGGATCCTTCTTTAAACCTGGCTTTGAGAAGTACAGTAATGTGGATTTATTTCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGTTCTGAGGCAGTTCGT
59.97
GGAGTTGGTGTAGAGCGATCA
59.52
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGGCAGTTCGTTGGATCC
60.04
GGAGTTGGTGTAGAGCGATCA
59.52
166
PCR template sequence:
TGCAGGACGGAGGTGATAAGCTTCTTCCAGTTCTGAGGCAGTTCGTTGGATCCTTCTTTAAACCTGGCTTTGAGAAGTACAGTAATGTGGATTTATTTCGATGCGGTGAAAGCTTGTACAGATGAGACCCTTACCAGTGGAGAAAGAATAGAGGTCTGCCTTCCACTTTACACAAACATGATCGCTCTACACCAACTCCT
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-19b-3p(1), mmu-miR-19a-3p(1), mmu-miR-676-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGATTTATTTCGATGCGGTGAAAGC
siRNA sets
ACCGCATCGAAATAAATCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZFC3H1_400_ORF_1
0.8036
0.043225943
0.353628805
414
ORF sequence:
ATGTGGATTTATTTCGATGCGGTGAAAGCTTGTACAGATGAGACCCTTACCAGTGGAGAAAGAATAGAGGTCTGCCTTCCACTTTACACAAACATGATCGCTCTACACCAACTCCTAGAGAGGTATGAGGAGGCAGTGGAGCTTTGCACAAGCTTGTTGGAGTCGTGTCCCACAAACTGCCAGTTATTGGAAACCCTTGCAGCTTTGTATTTGAAAACAGATCGATATGACAAAGCCCGAAGGGTTTGGCTTACTGCATTTGAAAATAACCCTCAGAATGCGGAAATTTTTTATCATCTCTGCAAATTTTTCATCTTGCAGGACGGAGGTGATAAGCTTCTTCCAGTTCTGAGGCAGTTCGTTGGATCCTTCTTTAAACCTGGCTTTGAGAAGTACAGTAATGTGGATTTATTT
Peptide sequence:
MWIYFDAVKACTDETLTSGERIEVCLPLYTNMIALHQLLERYEEAVELCTSLLESCPTNCQLLETLAALYLKTDRYDKARRVWLTAFENNPQNAEIFYHLCKFFILQDGGDKLLPVLRQFVGSFFKPGFEKYSNVDLF
IRESfinder result
IRESfinder score
0.728990224
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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