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mmu_circMta3_701
Basic information of circular RNA
PanCircBase ID:
mmu_circMta3_701
mm39_Chr. Position ID:
chr17|84045757|84083199|+
Gene name:
Mta3
Transcript:
ENSMUST00000112350.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
4,5,6,7,8,9
Exon/intron offsets:
0,15525,17230,24582,28178,37253
Genomic length:
37442
Exon/intron sizes in nt:
12,76,41,18,10,31,00,100
Flanking exon/introns:
chr17:84022136-84045757|chr17:84083199-84089330
Splice length:
701
Other database IDs:
circAtlas: mmu-Mta3_0025
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_366514
Human Ortholog IDs:
Mature spliced Sequence:
AAGAAACTGAGGAGGAGTCGGAGACGCCAGTTGAGGCCGACTTGACGGAGAAGCAGAAGCACCAGCTGAAACACAGGGAGCTCTTTCTGTCGCGCCAGTACGAGTCACTGCCTGCGACACATATCAGGGGGAAGTGCAGCGTGGCCCTGCTGAATGAGACAGAATCCGTGTTGTCATACCTTGACAAGGAGGATACCTTCTTCTACTCACTGGTATACGACCCTTCAGTGAAAACATTATTGGCTGACAAAGGTGAAATCAGAGTGGGCCCAAAGTACCAAGCTGACATTCCAGACATGCTACCAGAAGGAGACTCAGATGAGAGGGAACAATCAAAATTGGAAGTTAAGGTTTGGGACCCCAATAGCCCACTTACGGATCGACAGATTGACCAGTTTTTAGTTGTAGCCCGTGCCGTGGGAACATTTGCCCGAGCCCTGGACTGCAGCAGCTCCGTGAGGCAACCCAGCCTTCACATGAGTGCAGCCGCAGCCTCCCGAGACATCACCTTGTTTCATGCCATGGACACACTGTACAGGCACGGCTATGACCTCAGCAGCGCCATCAGTGTGCTGGTGCCGCTCGGAGGGCCAGTCCTCTGCAGGGACGAGATGGAGGAGTGGTCGGCCTCTGAAGCCTGCCTATTCGAAGAAGCACTGGAAAAATACGGCAAAGATTTCAACGACATTCGTCAGGACTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTCTGAAGCCTGCCTATT
59.82
GAGCTCCCTGTGTTTCAGCT
59.96
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTCTGAAGCCTGCCTATT
59.82
AGAGCTCCCTGTGTTTCAGC
59.96
159
PCR template sequence:
CAGGGACGAGATGGAGGAGTGGTCGGCCTCTGAAGCCTGCCTATTCGAAGAAGCACTGGAAAAATACGGCAAAGATTTCAACGACATTCGTCAGGACTTTAAGAAACTGAGGAGGAGTCGGAGACGCCAGTTGAGGCCGACTTGACGGAGAAGCAGAAGCACCAGCTGAAACACAGGGAGCTCTTTCTGTCGCGCCAGTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-34a-5p(1), mmu-miR-328-3p(1), mmu-miR-298-5p(1), mmu-miR-138-5p(1), mmu-miR-1904(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCGTCAGGACTTTAAGAAACTGAGGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMTA3_701_ORF_1
0.9153
0.286565024
0.699564016
450
ORF sequence:
ATGCTACCAGAAGGAGACTCAGATGAGAGGGAACAATCAAAATTGGAAGTTAAGGTTTGGGACCCCAATAGCCCACTTACGGATCGACAGATTGACCAGTTTTTAGTTGTAGCCCGTGCCGTGGGAACATTTGCCCGAGCCCTGGACTGCAGCAGCTCCGTGAGGCAACCCAGCCTTCACATGAGTGCAGCCGCAGCCTCCCGAGACATCACCTTGTTTCATGCCATGGACACACTGTACAGGCACGGCTATGACCTCAGCAGCGCCATCAGTGTGCTGGTGCCGCTCGGAGGGCCAGTCCTCTGCAGGGACGAGATGGAGGAGTGGTCGGCCTCTGAAGCCTGCCTATTCGAAGAAGCACTGGAAAAATACGGCAAAGATTTCAACGACATTCGTCAGGACTTTAAGAAACTGAGGAGGAGTCGGAGACGCCAGTTGAGGCCGACTTGA
Peptide sequence:
MLPEGDSDEREQSKLEVKVWDPNSPLTDRQIDQFLVVARAVGTFARALDCSSSVRQPSLHMSAAAASRDITLFHAMDTLYRHGYDLSSAISVLVPLGGPVLCRDEMEEWSASEACLFEEALEKYGKDFNDIRQDFKKLRRSRRRQLRPT
IRESfinder result
IRESfinder score
0.468653031
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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