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mmu_circBrap_263
Basic information of circular RNA
PanCircBase ID:
mmu_circBrap_263
mm39_Chr. Position ID:
chr5|121810147|121813441|+
Gene name:
Brap
Transcript:
ENSMUST00000031414.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,6
Exon/intron offsets:
0,3145
Genomic length:
3294
Exon/intron sizes in nt:
1,14,149
Flanking exon/introns:
chr5:121803351-121810147|chr5:121813441-121816826
Splice length:
263
Other database IDs:
CIRCpedia: MMU_CIRCpedia_216280, circAtlas: mmu-Brap_0005
circBase: hsa_circ_0028277, circAtlas: hsa-BRAP_0023, CIRCpedia: HSA_CIRCpedia_6713
Human Ortholog IDs:
Mature spliced Sequence:
GCTGATGCAGACAGTTTCTACATGGCGTGCAATGGCCGCCAGTTCAACTCAATCGAAGATGACGTCTGCCAGCTGGTCTATGTGGAAAGGGCTGAAGTGCTGAAATCTGAAGATGGCGCCAGCCTCCCCGTGATGGACCTGACGGAGCTGCCCAAGTGCACTGTGTGTCTGGAGCGGATGGACGAGTCTGTGAATGGCATCCTCACCACCCTCTGCAACCACAGCTTCCATAGTCAGTGTCTGCAGCGGTGGGATGACACCAC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAATGGCATCCTCACCACC
60.03
AGCTGGCAGACGTCATCTTC
60.11
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGACGAGTCTGTGAATGGCA
60.04
AGCTGGCAGACGTCATCTTC
60.11
158
PCR template sequence:
TGTGTCTGGAGCGGATGGACGAGTCTGTGAATGGCATCCTCACCACCCTCTGCAACCACAGCTTCCATAGTCAGTGTCTGCAGCGGTGGGATGACACCACGCTGATGCAGACAGTTTCTACATGGCGTGCAATGGCCGCCAGTTCAACTCAATCGAAGATGACGTCTGCCAGCTGGTCTATGTGGAAAGGGCTGAAGTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-148a-3p(1), mmu-miR-320-3p(1), mmu-miR-363-3p(1), mmu-miR-382-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGGATGACACCACGCTGATGCAGACA
siRNA sets
ATCAGCGTGGTGTCATCCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRAP_263_ORF_1
1.0008
0.357094246
0.635374079
345
ORF sequence:
ATGGCGTGCAATGGCCGCCAGTTCAACTCAATCGAAGATGACGTCTGCCAGCTGGTCTATGTGGAAAGGGCTGAAGTGCTGAAATCTGAAGATGGCGCCAGCCTCCCCGTGATGGACCTGACGGAGCTGCCCAAGTGCACTGTGTGTCTGGAGCGGATGGACGAGTCTGTGAATGGCATCCTCACCACCCTCTGCAACCACAGCTTCCATAGTCAGTGTCTGCAGCGGTGGGATGACACCACGCTGATGCAGACAGTTTCTACATGGCGTGCAATGGCCGCCAGTTCAACTCAATCGAAGATGACGTCTGCCAGCTGGTCTATGTGGAAAGGGCTGAAGTGCTGA
Peptide sequence:
MACNGRQFNSIEDDVCQLVYVERAEVLKSEDGASLPVMDLTELPKCTVCLERMDESVNGILTTLCNHSFHSQCLQRWDDTTLMQTVSTWRAMAASSTQSKMTSASWSMWKGLKC
IRESfinder result
IRESfinder score
0.102764216
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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