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mmu_circZc3h7a_270
Basic information of circular RNA
PanCircBase ID:
mmu_circZc3h7a_270
mm39_Chr. Position ID:
chr16|10969729|10971127|-
Gene name:
Zc3h7a
Transcript:
ENSMUST00000037633.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
11,10
Exon/intron offsets:
0,1193
Genomic length:
1398
Exon/intron sizes in nt:
65,205
Flanking exon/introns:
chr16:10969189-10969729|chr16:10971127-10973883
Splice length:
270
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TCCTCCACTCTGGTCAGAGGACCCCTCCCGACTGCCAGTGCAGCTCCGAGCTTGCCCTTCAGGACACAATCCCTGCTTGGAACCTTGCCCATGGGTACAAGGTATCCTGAGCCCTCCTTTGCAGACTTTTTTCCACCTCTGACTTCATCCTTGGAAGAATTTTACTCTTCTTTAAATTCATTTTCAGTGACTGAATCCAAACGAGATCTGTGCACCTCAACTGCTAGAGAGGGAACACCGCTTAACAACAGTAATTCCTCCCTTTTACTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCTGTGCACCTCAACTGCT
59.6
CCAAGCAGGGATTGTGTCCT
59.96
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCTGTGCACCTCAACTGCT
59.6
TGTACCCATGGGCAAGGTTC
59.96
164
PCR template sequence:
TTTAAATTCATTTTCAGTGACTGAATCCAAACGAGATCTGTGCACCTCAACTGCTAGAGAGGGAACACCGCTTAACAACAGTAATTCCTCCCTTTTACTTTCCTCCACTCTGGTCAGAGGACCCCTCCCGACTGCCAGTGCAGCTCCGAGCTTGCCCTTCAGGACACAATCCCTGCTTGGAACCTTGCCCATGGGTACAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-541-5p(2), mmu-miR-298-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCCCTTTTACTTTCCTCCACTCTGG
siRNA sets
AGTGGAGGAAAGTAAAAGG, GTGGAGGAAAGTAAAAGGG, TGGAGGAAAGTAAAAGGGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZC3H7A_270_ORF_1
0.695
-0.110234205
0.237460364
450
ORF sequence:
ATGGGTACAAGGTATCCTGAGCCCTCCTTTGCAGACTTTTTTCCACCTCTGACTTCATCCTTGGAAGAATTTTACTCTTCTTTAAATTCATTTTCAGTGACTGAATCCAAACGAGATCTGTGCACCTCAACTGCTAGAGAGGGAACACCGCTTAACAACAGTAATTCCTCCCTTTTACTTTCCTCCACTCTGGTCAGAGGACCCCTCCCGACTGCCAGTGCAGCTCCGAGCTTGCCCTTCAGGACACAATCCCTGCTTGGAACCTTGCCCATGGGTACAAGGTATCCTGAGCCCTCCTTTGCAGACTTTTTTCCACCTCTGACTTCATCCTTGGAAGAATTTTACTCTTCTTTAAATTCATTTTCAGTGACTGAATCCAAACGAGATCTGTGCACCTCAACTGCTAGAGAGGGAACACCGCTTAACAACAGTAATTCCTCCCTTTTACTT
Peptide sequence:
MGTRYPEPSFADFFPPLTSSLEEFYSSLNSFSVTESKRDLCTSTAREGTPLNNSNSSLLLSSTLVRGPLPTASAAPSLPFRTQSLLGTLPMGTRYPEPSFADFFPPLTSSLEEFYSSLNSFSVTESKRDLCTSTAREGTPLNNSNSSLLL
IRESfinder result
IRESfinder score
0.923262092
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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