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mmu_circSec24a_234
Basic information of circular RNA
PanCircBase ID:
mmu_circSec24a_234
mm39_Chr. Position ID:
chr11|51617311|51620402|-
Gene name:
Sec24a
Transcript:
ENSMUST00000038210.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
9,8
Exon/intron offsets:
0,2967
Genomic length:
3091
Exon/intron sizes in nt:
1,10,124
Flanking exon/introns:
chr11:51614523-51617311|chr11:51620402-51622629
Splice length:
234
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTGCCCGTGGTCACCTCCAGCACAATTGTGAGATGCCGTTCATGCAGGACTTACATTAACCCTTTCGTCAACTTCCTTGATCAAAGAAGGTGGAAATGTAACTTATGTTATCGAGTCAATGATGTTCCTGAAGAATTCATGTACAACCCTTTAACCAGAGTTTATGGAGAACCTCACAAAAGACCTGAAGTCCAGAATGCTACTATTGAGTTTATGGCTCCTTCAGAATACATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGAGAACCTCACAAAAGACCT
59.22
TCAAGGAAGTTGACGAAAGGGT
59.83
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGAACCTCACAAAAGACCTG
58.86
TCAAGGAAGTTGACGAAAGGGT
59.83
149
PCR template sequence:
ATTCATGTACAACCCTTTAACCAGAGTTTATGGAGAACCTCACAAAAGACCTGAAGTCCAGAATGCTACTATTGAGTTTATGGCTCCTTCAGAATACATGTTGCCCGTGGTCACCTCCAGCACAATTGTGAGATGCCGTTCATGCAGGACTTACATTAACCCTTTCGTCAACTTCCTTGATCAAAGAAGGTGGAAATGTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
TTCAGAATACATGTTGCCCGTGGTCA
siRNA sets
ACGGGCAACATGTATTCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSEC24A_234_ORF_1
0.7359
0.064838423
0.224595822
330
ORF sequence:
ATGTACAACCCTTTAACCAGAGTTTATGGAGAACCTCACAAAAGACCTGAAGTCCAGAATGCTACTATTGAGTTTATGGCTCCTTCAGAATACATGTTGCCCGTGGTCACCTCCAGCACAATTGTGAGATGCCGTTCATGCAGGACTTACATTAACCCTTTCGTCAACTTCCTTGATCAAAGAAGGTGGAAATGTAACTTATGTTATCGAGTCAATGATGTTCCTGAAGAATTCATGTACAACCCTTTAACCAGAGTTTATGGAGAACCTCACAAAAGACCTGAAGTCCAGAATGCTACTATTGAGTTTATGGCTCCTTCAGAATACATG
Peptide sequence:
MYNPLTRVYGEPHKRPEVQNATIEFMAPSEYMLPVVTSSTIVRCRSCRTYINPFVNFLDQRRWKCNLCYRVNDVPEEFMYNPLTRVYGEPHKRPEVQNATIEFMAPSEYM
IRESfinder result
IRESfinder score
0.724527935
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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