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mmu_circMacroh2a2_499
Basic information of circular RNA
PanCircBase ID:
mmu_circMacroh2a2_499
mm39_Chr. Position ID:
chr10|61582411|61587653|-
Gene name:
Macroh2a2
Transcript:
ENSMUST00000020283.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
7,6,5,4
Exon/intron offsets:
0,1039,2643,5044
Genomic length:
5242
Exon/intron sizes in nt:
90,10,01,11,198
Flanking exon/introns:
chr10:61577088-61582411|chr10:61587653-61589240
Splice length:
499
Other database IDs:
CIRCpedia: MMU_CIRCpedia_25109
circAtlas: hsa-H2AFY2_0006, CIRCpedia: HSA_CIRCpedia_151997
Human Ortholog IDs:
Mature spliced Sequence:
CTACTGAAAGGAGTGACTATCGCCAGTGGGGGTGTCCTGCCGAGAATCCACCCCGAACTGCTGGCCAAGAAGCGAGGGACCAAAGGCAAGTCAGAGACGATCCTCTCCCCACCCCCAGAGAAAAGAGGAAGGAAGGCCGCATCAGGCAAGAAGGGGGGTAAGAAATCCAAGGCCACCAAGCCACGGACGTCCAAGAAGTCTAAAGCAAAGGACAGCGATAAAGAAGGAACATCAAATTCCACCTCGGAGGATGGGCCGGGAGATGGCTTCACCATCTTGTCTTCGAAGAGCCTCGTTCTGGGGCAGAAGCTATCCCTGACCCAGAGTGACATCAGCCATATTGGCTCCATGAGGGTGGAGGGCATCGTCCACCCAACCACAGCCGAGATCGACCTCAAGGAAGAGATAGGGAAAGCCTTGGAAAAGGCTGGGGGTAAAGAGTTCTTGGAAACAGTGAAGGAGCTTCGCAAGTCCCAAGGCCCTTTGGAAGTCGCTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGGAGCTTCGCAAGTCC
60.32
TCTGACTTGCCTTTGGTCCC
59.89
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTGGAAAAGGCTGGGGGTA
59.59
CCTTTGGTCCCTCGCTTCTT
59.96
169
PCR template sequence:
GAAGAGATAGGGAAAGCCTTGGAAAAGGCTGGGGGTAAAGAGTTCTTGGAAACAGTGAAGGAGCTTCGCAAGTCCCAAGGCCCTTTGGAAGTCGCTGAAGCTACTGAAAGGAGTGACTATCGCCAGTGGGGGTGTCCTGCCGAGAATCCACCCCGAACTGCTGGCCAAGAAGCGAGGGACCAAAGGCAAGTCAGAGACGA
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-9-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GAAGTCGCTGAAGCTACTGAAAGGAG
siRNA sets
CTTTCAGTAGCTTCAGCGA, TCCTTTCAGTAGCTTCAGC, TTTCAGTAGCTTCAGCGAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMACROH2A2_499_ORF_1
1.0389
0.286873944
0.52246845
312
ORF sequence:
ATGAGGGTGGAGGGCATCGTCCACCCAACCACAGCCGAGATCGACCTCAAGGAAGAGATAGGGAAAGCCTTGGAAAAGGCTGGGGGTAAAGAGTTCTTGGAAACAGTGAAGGAGCTTCGCAAGTCCCAAGGCCCTTTGGAAGTCGCTGAAGCTACTGAAAGGAGTGACTATCGCCAGTGGGGGTGTCCTGCCGAGAATCCACCCCGAACTGCTGGCCAAGAAGCGAGGGACCAAAGGCAAGTCAGAGACGATCCTCTCCCCACCCCCAGAGAAAAGAGGAAGGAAGGCCGCATCAGGCAAGAAGGGGGGTAA
Peptide sequence:
MRVEGIVHPTTAEIDLKEEIGKALEKAGGKEFLETVKELRKSQGPLEVAEATERSDYRQWGCPAENPPRTAGQEARDQRQVRDDPLPTPREKRKEGRIRQEGG
IRESfinder result
IRESfinder score
0.277353331
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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