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mmu_circAdd1_448
Basic information of circular RNA
PanCircBase ID:
mmu_circAdd1_448
mm39_Chr. Position ID:
chr5|34776693|34785857|+
Gene name:
Add1
Transcript:
ENSMUST00000114338.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
11,12,13,14
Exon/intron offsets:
0,695,5929,9065
Genomic length:
9164
Exon/intron sizes in nt:
102,90,157,99
Flanking exon/introns:
chr5:34774158-34776693|chr5:34785857-34786479
Splice length:
448
Other database IDs:
CIRCpedia: MMU_CIRCpedia_17403, circAtlas: mmu-Add1_0003
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_102690
Human Ortholog IDs:
Mature spliced Sequence:
TGGACTAAAGAGGATGGACATAGAACTTCCACCTCTGCTGTCCCTAACCTGTTTGTTCCATTGAACACTAACCCAAAAGAGGTCCAGGAGATGAGGAACAAGATTCGAGAGCAGAACTTACAGGACATTAAGACGGCAGGACCTCAGTCCCAGGTTTTGTGTGGTGTGATGATGGACAGAAGCCTTGTTCAGGGGGAGCTGGTGACGGCCTCCAAAGCCATCATTGAGAAGGAATACCAGCCCCATGTAATTGTGAGCACCACAGGTCCCAACCCCTTCAACACGCTGACAGACCGTGAACTGGAAGAATACCGACGAGAGGTGGAGCGGAAGCAGAAGGGCTCTGAAGAGAACCTGGATGAGACAAGAGAGCAGAAAGAGAAGAGTCCTCCAGACCAGTCAGCTGTCCCCAACACTCCTCCCAGTACTCCTGTCAAGCTTGAAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCAGACCAGTCAGCTGTC
59.75
CTCCTGGACCTCTTTTGGGT
58.93
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCAGACCAGTCAGCTGTC
59.75
TGTTCCTCATCTCCTGGACCT
59.92
160
PCR template sequence:
GAGAACCTGGATGAGACAAGAGAGCAGAAAGAGAAGAGTCCTCCAGACCAGTCAGCTGTCCCCAACACTCCTCCCAGTACTCCTGTCAAGCTTGAAGAAGTGGACTAAAGAGGATGGACATAGAACTTCCACCTCTGCTGTCCCTAACCTGTTTGTTCCATTGAACACTAACCCAAAAGAGGTCCAGGAGATGAGGAACA
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-298-5p(1), mmu-miR-495-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AAGCTTGAAGAAGTGGACTAAAGAGG
siRNA sets
TTTAGTCCACTTCTTCAAG, TTAGTCCACTTCTTCAAGC, TCTTTAGTCCACTTCTTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADD1_448_ORF_1
1.1996
0.347604268
0.905778607
537
ORF sequence:
ATGAGACAAGAGAGCAGAAAGAGAAGAGTCCTCCAGACCAGTCAGCTGTCCCCAACACTCCTCCCAGTACTCCTGTCAAGCTTGAAGAAGTGGACTAAAGAGGATGGACATAGAACTTCCACCTCTGCTGTCCCTAACCTGTTTGTTCCATTGAACACTAACCCAAAAGAGGTCCAGGAGATGAGGAACAAGATTCGAGAGCAGAACTTACAGGACATTAAGACGGCAGGACCTCAGTCCCAGGTTTTGTGTGGTGTGATGATGGACAGAAGCCTTGTTCAGGGGGAGCTGGTGACGGCCTCCAAAGCCATCATTGAGAAGGAATACCAGCCCCATGTAATTGTGAGCACCACAGGTCCCAACCCCTTCAACACGCTGACAGACCGTGAACTGGAAGAATACCGACGAGAGGTGGAGCGGAAGCAGAAGGGCTCTGAAGAGAACCTGGATGAGACAAGAGAGCAGAAAGAGAAGAGTCCTCCAGACCAGTCAGCTGTCCCCAACACTCCTCCCAGTACTCCTGTCAAGCTTGAAGAA
Peptide sequence:
MRQESRKRRVLQTSQLSPTLLPVLLSSLKKWTKEDGHRTSTSAVPNLFVPLNTNPKEVQEMRNKIREQNLQDIKTAGPQSQVLCGVMMDRSLVQGELVTASKAIIEKEYQPHVIVSTTGPNPFNTLTDRELEEYRREVERKQKGSEENLDETREQKEKSPPDQSAVPNTPPSTPVKLEE
IRESfinder result
IRESfinder score
0.528584163
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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