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mmu_circMapk8_299
Basic information of circular RNA
PanCircBase ID:
mmu_circMapk8_299
mm39_Chr. Position ID:
chr14|33130004|33132981|-
Gene name:
Mapk8
Transcript:
ENSMUST00000111945.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,2808
Genomic length:
2977
Exon/intron sizes in nt:
130,169
Flanking exon/introns:
chr14:33124880-33130004|chr14:33132981-33168971
Splice length:
299
Other database IDs:
circBase: mmu_circ_0005212, CIRCpedia: MMU_CIRCpedia_16903, circAtlas: mmu-Mapk8_0003
circBase: hsa_circ_0018315, circAtlas: hsa-MAPK8_0002, CIRCpedia: HSA_CIRCpedia_1731
Human Ortholog IDs:
Mature spliced Sequence:
CCTTGGTGAATATTTGGATGAAGCCATTAGACTAATTGCTTGCCATCATGAGCAGAAGCAAACGTGACAACAATTTTTATAGTGTAGAGATTGGAGATTCTACATTCACAGTCCTAAAACGATACCAGAATTTAAAGCCTATAGGCTCAGGAGCTCAAGGAATAGTGTGTGCAGCTTATGATGCCATTCTTGAAAGAAATGTTGCAATCAAGAAGCTCAGCCGGCCATTTCAGAATCAGACCCATGCTAAGCGCGCCTACCGAGAACTAGTTCTTATGAAGTGTGTTAATCACAAAAAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCGGCCATTTCAGAATCA
60.03
TGCTTCTGCTCATGATGGCA
60.03
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGCCGGCCATTTCAGAAT
60.03
TGCTTCTGCTCATGATGGCA
60.03
143
PCR template sequence:
TGTTGCAATCAAGAAGCTCAGCCGGCCATTTCAGAATCAGACCCATGCTAAGCGCGCCTACCGAGAACTAGTTCTTATGAAGTGTGTTAATCACAAAAATCCTTGGTGAATATTTGGATGAAGCCATTAGACTAATTGCTTGCCATCATGAGCAGAAGCAAACGTGACAACAATTTTTATAGTGTAGAGATTGGAGATTC
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-135a-5p(1), mmu-miR-433-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TAATCACAAAAATCCTTGGTGAATAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMAPK8_299_ORF_1
0.8125
0.058015836
0.164449832
261
ORF sequence:
ATGAGCAGAAGCAAACGTGACAACAATTTTTATAGTGTAGAGATTGGAGATTCTACATTCACAGTCCTAAAACGATACCAGAATTTAAAGCCTATAGGCTCAGGAGCTCAAGGAATAGTGTGTGCAGCTTATGATGCCATTCTTGAAAGAAATGTTGCAATCAAGAAGCTCAGCCGGCCATTTCAGAATCAGACCCATGCTAAGCGCGCCTACCGAGAACTAGTTCTTATGAAGTGTGTTAATCACAAAAATCCTTGGTGA
Peptide sequence:
MSRSKRDNNFYSVEIGDSTFTVLKRYQNLKPIGSGAQGIVCAAYDAILERNVAIKKLSRPFQNQTHAKRAYRELVLMKCVNHKNPW
IRESfinder result
IRESfinder score
0.555103591
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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