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mmu_circMink1_514
Basic information of circular RNA
PanCircBase ID:
mmu_circMink1_514
mm39_Chr. Position ID:
chr11|70500379|70501535|+
Gene name:
Mink1
Transcript:
ENSMUST00000072237.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
22,23,24,25
Exon/intron offsets:
0,527,712,1047
Genomic length:
1156
Exon/intron sizes in nt:
1,64,10,31,38,109
Flanking exon/introns:
chr11:70500257-70500379|chr11:70501535-70502135
Splice length:
514
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GACTTTGTGTTGCTCAAAGAGCGGACTCTGGATGAGGCCCCTAAGCCTCCCAAGAAGGCCATGGACTACTCCTCATCCAGTGAGGAGGTGGAAAGCAGTGAAGAGGAGGAGGAGGAAGGCGATGGGGAGCCGTCAGAGGGGAGCAGAGACACTCCCGGGGGCCGTGATGGTGATACAGACAGCGTCAGCACCATGGTGGTTCATGATGTTGAGGAGATATCCGGGACCCAGCCCTCATATGGCGGCGGCACCATGGTGGTCCAGCGTACTCCTGAAGAGGAACGAAGCCTGCTGCTTGCTGATAGCAATGGCTACACAAACCTGCCTGATGTGGTCCAGCCCAGCCACTCACCTACTGAGAACAGCAAAGGTCAAAGCCCTCCAACAAAGGATGGAGGCAGTGATTACCAGTCTCGTGGGCTGGTAAAGGCCCCAGGAAAGAGCTCATTCACCATGTTTGTGGATCTAGGGATCTACCAGCCTGGAGGCAGTGGGGACACCATCCCTATCACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCCAGGAAAGAGCTCATT
60.03
GCCTTCTTGGGAGGCTTAGG
60.11
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCCAGGAAAGAGCTCATT
60.03
TGAGGAGTAGTCCATGGCCT
59.66
160
PCR template sequence:
CGTGGGCTGGTAAAGGCCCCAGGAAAGAGCTCATTCACCATGTTTGTGGATCTAGGGATCTACCAGCCTGGAGGCAGTGGGGACACCATCCCTATCACAGGACTTTGTGTTGCTCAAAGAGCGGACTCTGGATGAGGCCCCTAAGCCTCCCAAGAAGGCCATGGACTACTCCTCATCCAGTGAGGAGGTGGAAAGCAGTG
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-495-3p(1), mmu-miR-324-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
ATCCCTATCACAGGACTTTGTGTTGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMINK1_514_ORF_1
1.1633
0.372739601
0.875330727
489
ORF sequence:
ATGGACTACTCCTCATCCAGTGAGGAGGTGGAAAGCAGTGAAGAGGAGGAGGAGGAAGGCGATGGGGAGCCGTCAGAGGGGAGCAGAGACACTCCCGGGGGCCGTGATGGTGATACAGACAGCGTCAGCACCATGGTGGTTCATGATGTTGAGGAGATATCCGGGACCCAGCCCTCATATGGCGGCGGCACCATGGTGGTCCAGCGTACTCCTGAAGAGGAACGAAGCCTGCTGCTTGCTGATAGCAATGGCTACACAAACCTGCCTGATGTGGTCCAGCCCAGCCACTCACCTACTGAGAACAGCAAAGGTCAAAGCCCTCCAACAAAGGATGGAGGCAGTGATTACCAGTCTCGTGGGCTGGTAAAGGCCCCAGGAAAGAGCTCATTCACCATGTTTGTGGATCTAGGGATCTACCAGCCTGGAGGCAGTGGGGACACCATCCCTATCACAGGACTTTGTGTTGCTCAAAGAGCGGACTCTGGATGA
Peptide sequence:
MDYSSSSEEVESSEEEEEEGDGEPSEGSRDTPGGRDGDTDSVSTMVVHDVEEISGTQPSYGGGTMVVQRTPEEERSLLLADSNGYTNLPDVVQPSHSPTENSKGQSPPTKDGGSDYQSRGLVKAPGKSSFTMFVDLGIYQPGGSGDTIPITGLCVAQRADSG
IRESfinder result
IRESfinder score
0.342424542
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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