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mmu_circBrat1_303
Basic information of circular RNA
PanCircBase ID:
mmu_circBrat1_303
mm39_Chr. Position ID:
chr5|140695892|140697408|+
Gene name:
Brat1
Transcript:
ENSMUST00000041588.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,4
Exon/intron offsets:
0,1368
Genomic length:
1516
Exon/intron sizes in nt:
1,55,148
Flanking exon/introns:
chr5:140691851-140695892|chr5:140697408-140698259
Splice length:
303
Other database IDs:
CIRCpedia: MMU_CIRCpedia_9013, circAtlas: mmu-Brat1_0008
circBase: hsa_circ_0134015, circAtlas: hsa-BRAT1_0001, CIRCpedia: HSA_CIRCpedia_57743
Human Ortholog IDs:
Mature spliced Sequence:
AGTCTAGCCTCCAACTACTACAGGACCATCCCTGCTTAATGGAGCTCCTGTCCCATGTGCTGAAGCCACAGGACGTGAGCCCTAGGGTCCTCTCCTTTGCTCTGCGCCTTGTTGGGGTCTTCGCAGCCCAGGAAGACTGTTTTGAGTACCTTCAGCAGGGAGAGTTGTTGCTGGGGCTCTTTGGGGAGTCAGGTGCCCCCGGCTGGGCAGCCTGGAGCATCCCAAGTGTGCGCAGCGGCTGGATCCAGGGTCTGTGCTACCTGGCACACCACCCTAGCGCCCTGCACTTCCTGGCTGACAGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGATCCAGGGTCTGTGCTA
59.96
AAAGGAGAGGACCCTAGGGC
60.33
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCCAGGGTCTGTGCTACCT
59.96
AAAGGAGAGGACCCTAGGGC
60.33
159
PCR template sequence:
TGGGCAGCCTGGAGCATCCCAAGTGTGCGCAGCGGCTGGATCCAGGGTCTGTGCTACCTGGCACACCACCCTAGCGCCCTGCACTTCCTGGCTGACAGTGAGTCTAGCCTCCAACTACTACAGGACCATCCCTGCTTAATGGAGCTCCTGTCCCATGTGCTGAAGCCACAGGACGTGAGCCCTAGGGTCCTCTCCTTTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-676-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGGCTGACAGTGAGTCTAGCCTCCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRAT1_303_ORF_1
1.0982
0.264715739
0.876418821
567
ORF sequence:
ATGGAGCTCCTGTCCCATGTGCTGAAGCCACAGGACGTGAGCCCTAGGGTCCTCTCCTTTGCTCTGCGCCTTGTTGGGGTCTTCGCAGCCCAGGAAGACTGTTTTGAGTACCTTCAGCAGGGAGAGTTGTTGCTGGGGCTCTTTGGGGAGTCAGGTGCCCCCGGCTGGGCAGCCTGGAGCATCCCAAGTGTGCGCAGCGGCTGGATCCAGGGTCTGTGCTACCTGGCACACCACCCTAGCGCCCTGCACTTCCTGGCTGACAGTGAGTCTAGCCTCCAACTACTACAGGACCATCCCTGCTTAATGGAGCTCCTGTCCCATGTGCTGAAGCCACAGGACGTGAGCCCTAGGGTCCTCTCCTTTGCTCTGCGCCTTGTTGGGGTCTTCGCAGCCCAGGAAGACTGTTTTGAGTACCTTCAGCAGGGAGAGTTGTTGCTGGGGCTCTTTGGGGAGTCAGGTGCCCCCGGCTGGGCAGCCTGGAGCATCCCAAGTGTGCGCAGCGGCTGGATCCAGGGTCTGTGCTACCTGGCACACCACCCTAGCGCCCTGCACTTCCTGGCTGACAGT
Peptide sequence:
MELLSHVLKPQDVSPRVLSFALRLVGVFAAQEDCFEYLQQGELLLGLFGESGAPGWAAWSIPSVRSGWIQGLCYLAHHPSALHFLADSESSLQLLQDHPCLMELLSHVLKPQDVSPRVLSFALRLVGVFAAQEDCFEYLQQGELLLGLFGESGAPGWAAWSIPSVRSGWIQGLCYLAHHPSALHFLADS
IRESfinder result
IRESfinder score
0.626429444
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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