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mmu_circBrap_415
Basic information of circular RNA
PanCircBase ID:
mmu_circBrap_415
mm39_Chr. Position ID:
chr5|121816826|121820932|+
Gene name:
Brap
Transcript:
ENSMUST00000031414.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
7,8,9,10
Exon/intron offsets:
0,447,1053,4016
Genomic length:
4106
Exon/intron sizes in nt:
76,139,110,90
Flanking exon/introns:
chr5:121813441-121816826|chr5:121820932-121822433
Splice length:
415
Other database IDs:
CIRCpedia: MMU_CIRCpedia_39656, circAtlas: mmu-Brap_0009
circAtlas: hsa-BRAP_0002, CIRCpedia: HSA_CIRCpedia_6705
Human Ortholog IDs:
Mature spliced Sequence:
GTGTCCTGTGTGCCGATACTGTCAAACGCCAGAGCCAGTGGAAGAAAACAAATGTTTTGAGTGTGGTGTCCAGGAAAACCTCTGGATTTGTTTAATATGCGGCCACATAGGCTGTGGGCGGTACGTGAGTCGGCATGCTTACAAGCACTTTGAGGAGACCCAGCACACATACGCCATGCAGCTCACCAACCATCGAGTCTGGGACTATGCTGGAGATAATTATGTCCATCGACTGGTTGCAAGCAAGACGGATGGAAAGATCGTTCAGTACGAGTGTGAGGGCGACACCTGCCAGGAAGAGAAGATAGATGCCTTACAGTTAGAGTACTCGTACCTGTTGACAAGCCAGCTGGAATCGCAGCGGATATACTGGGAGAACAAAATCGTGCGCATAGAGAAGGACACGGCAGAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTGACAAGCCAGCTGGAA
60.11
GGTTTTCCTGGACACCACAC
58.97
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTGACAAGCCAGCTGGAA
60.11
TCCTGGACACCACACTCAAA
58.79
155
PCR template sequence:
ACAGTTAGAGTACTCGTACCTGTTGACAAGCCAGCTGGAATCGCAGCGGATATACTGGGAGAACAAAATCGTGCGCATAGAGAAGGACACGGCAGAGGAGGTGTCCTGTGTGCCGATACTGTCAAACGCCAGAGCCAGTGGAAGAAAACAAATGTTTTGAGTGTGGTGTCCAGGAAAACCTCTGGATTTGTTTAATATGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-149-5p(1), mmu-miR-431-5p(1), mmu-miR-1187(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CACGGCAGAGGAGGTGTCCTGTGTGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRAP_415_ORF_1
1.106
0.367219933
0.613143964
300
ORF sequence:
ATGCAGCTCACCAACCATCGAGTCTGGGACTATGCTGGAGATAATTATGTCCATCGACTGGTTGCAAGCAAGACGGATGGAAAGATCGTTCAGTACGAGTGTGAGGGCGACACCTGCCAGGAAGAGAAGATAGATGCCTTACAGTTAGAGTACTCGTACCTGTTGACAAGCCAGCTGGAATCGCAGCGGATATACTGGGAGAACAAAATCGTGCGCATAGAGAAGGACACGGCAGAGGAGGTGTCCTGTGTGCCGATACTGTCAAACGCCAGAGCCAGTGGAAGAAAACAAATGTTTTGA
Peptide sequence:
MQLTNHRVWDYAGDNYVHRLVASKTDGKIVQYECEGDTCQEEKIDALQLEYSYLLTSQLESQRIYWENKIVRIEKDTAEEVSCVPILSNARASGRKQMF
IRESfinder result
IRESfinder score
0.29978711
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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