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mmu_circBrap_478
Basic information of circular RNA
PanCircBase ID:
mmu_circBrap_478
mm39_Chr. Position ID:
chr5|121810147|121817412|+
Gene name:
Brap
Transcript:
ENSMUST00000031414.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,6,7,8
Exon/intron offsets:
0,3145,6679,7126
Genomic length:
7265
Exon/intron sizes in nt:
11,41,49,76,139
Flanking exon/introns:
chr5:121803351-121810147|chr5:121817412-121817879
Splice length:
478
Other database IDs:
circAtlas: mmu-Brap_0024
Human Ortholog IDs:
Mature spliced Sequence:
GCTGATGCAGACAGTTTCTACATGGCGTGCAATGGCCGCCAGTTCAACTCAATCGAAGATGACGTCTGCCAGCTGGTCTATGTGGAAAGGGCTGAAGTGCTGAAATCTGAAGATGGCGCCAGCCTCCCCGTGATGGACCTGACGGAGCTGCCCAAGTGCACTGTGTGTCTGGAGCGGATGGACGAGTCTGTGAATGGCATCCTCACCACCCTCTGCAACCACAGCTTCCATAGTCAGTGTCTGCAGCGGTGGGATGACACCACGTGTCCTGTGTGCCGATACTGTCAAACGCCAGAGCCAGTGGAAGAAAACAAATGTTTTGAGTGTGGTGTCCAGGAAAACCTCTGGATTTGTTTAATATGCGGCCACATAGGCTGTGGGCGGTACGTGAGTCGGCATGCTTACAAGCACTTTGAGGAGACCCAGCACACATACGCCATGCAGCTCACCAACCATCGAGTCTGGGACTATGCTGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGAGGAGACCCAGCACAC
59.89
AGCTGGCAGACGTCATCTTC
60.11
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGAGGAGACCCAGCACAC
59.89
TTCCACATAGACCAGCTGGC
59.75
154
PCR template sequence:
GGGCGGTACGTGAGTCGGCATGCTTACAAGCACTTTGAGGAGACCCAGCACACATACGCCATGCAGCTCACCAACCATCGAGTCTGGGACTATGCTGGAGGCTGATGCAGACAGTTTCTACATGGCGTGCAATGGCCGCCAGTTCAACTCAATCGAAGATGACGTCTGCCAGCTGGTCTATGTGGAAAGGGCTGAAGTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
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-148a-3p(1), mmu-miR-320-3p(1), mmu-miR-149-5p(1), mmu-miR-363-3p(1), mmu-miR-382-3p(1), mmu-miR-1187(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GACTATGCTGGAGGCTGATGCAGACA
siRNA sets
ATCAGCCTCCAGCATAGTC, TGTCTGCATCAGCCTCCAG, CATCAGCCTCCAGCATAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRAP_478_ORF_1
0.7686
0.324385193
0.820068586
558
ORF sequence:
ATGCTTACAAGCACTTTGAGGAGACCCAGCACACATACGCCATGCAGCTCACCAACCATCGAGTCTGGGACTATGCTGGAGGCTGATGCAGACAGTTTCTACATGGCGTGCAATGGCCGCCAGTTCAACTCAATCGAAGATGACGTCTGCCAGCTGGTCTATGTGGAAAGGGCTGAAGTGCTGAAATCTGAAGATGGCGCCAGCCTCCCCGTGATGGACCTGACGGAGCTGCCCAAGTGCACTGTGTGTCTGGAGCGGATGGACGAGTCTGTGAATGGCATCCTCACCACCCTCTGCAACCACAGCTTCCATAGTCAGTGTCTGCAGCGGTGGGATGACACCACGTGTCCTGTGTGCCGATACTGTCAAACGCCAGAGCCAGTGGAAGAAAACAAATGTTTTGAGTGTGGTGTCCAGGAAAACCTCTGGATTTGTTTAATATGCGGCCACATAGGCTGTGGGCGGTACGTGAGTCGGCATGCTTACAAGCACTTTGAGGAGACCCAGCACACATACGCCATGCAGCTCACCAACCATCGAGTCTGGGACTATGCTGGA
Peptide sequence:
MLTSTLRRPSTHTPCSSPTIESGTMLEADADSFYMACNGRQFNSIEDDVCQLVYVERAEVLKSEDGASLPVMDLTELPKCTVCLERMDESVNGILTTLCNHSFHSQCLQRWDDTTCPVCRYCQTPEPVEENKCFECGVQENLWICLICGHIGCGRYVSRHAYKHFEETQHTYAMQLTNHRVWDYAG
IRESfinder result
IRESfinder score
0.216580757
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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