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mmu_circBirc6_476
Basic information of circular RNA
PanCircBase ID:
mmu_circBirc6_476
mm39_Chr. Position ID:
chr17|74925430|74929246|+
Gene name:
Birc6
Transcript:
ENSMUST00000180037.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
32,33,34
Exon/intron offsets:
0,1271,3600
Genomic length:
3816
Exon/intron sizes in nt:
128,132,216
Flanking exon/introns:
chr17:74922325-74925430|chr17:74929246-74929903
Splice length:
476
Other database IDs:
circBase: mmu_circ_0007000, CIRCpedia: MMU_CIRCpedia_28805, circAtlas: mmu-Birc6_0008
circBase: hsa_circ_0119816, circAtlas: hsa-BIRC6_0014, CIRCpedia: HSA_CIRCpedia_40853
Human Ortholog IDs:
Mature spliced Sequence:
GTAACCAATGGAGTTTTATTAACAATAATCTGCATACTCAGAACTTAAATAGATCCTCCAAGGGAGGCAGTAGCCTCGATAGATTATATTCCAGAAAAATCAGAAAGCAGCTTGTCCATCATAAGCAGCAACTTAACCTACTAAAGGCAAAACAGAAGGCTTTGGTGGAACAGATGGAAAAAGAAAAAATACAGAGTAACAAAGGCTCATCATATAAACTGCTAGTAGAGCAAGCAAAACTGAAGCAGGCGACCTCCAAGCATTTTAAGGATTTGATTCGCTTGCGCCGGACAGCAGAATGGTCTCGTTCTAATTTAGACACTGAAGTTACAACAACAAAAGAGAGCCCTGAGATTGAGCCTCTTCCATTTACTCTGGCCCATGACCGTTGTATCTCAGTAGTGCAAAAGCTCGTCCTGTTTCTTCTTTCCATGGATTTCACCTGCCATGCAGACCTCTTACTGTTTGTCTGCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGCAAAAGCTCGTCCTGT
60.18
GCTACTGCCTCCCTTGGA
58.27
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCCATGACCGTTGTATCT
59.82
GCTACTGCCTCCCTTGGA
58.27
174
PCR template sequence:
GGCCCATGACCGTTGTATCTCAGTAGTGCAAAAGCTCGTCCTGTTTCTTCTTTCCATGGATTTCACCTGCCATGCAGACCTCTTACTGTTTGTCTGCAAGGTAACCAATGGAGTTTTATTAACAATAATCTGCATACTCAGAACTTAAATAGATCCTCCAAGGGAGGCAGTAGCCTCGATAGATTATATTCCAGAAAAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-136-5p(1), mmu-miR-1904(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTTGTCTGCAAGGTAACCAATGGAG
siRNA sets
CTCCATTGGTTACCTTGCA, ATTGGTTACCTTGCAGACA, TTGGTTACCTTGCAGACAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBIRC6_476_ORF_1
0.7787
-0.006754532
0.212159143
351
ORF sequence:
ATGGAAAAAGAAAAAATACAGAGTAACAAAGGCTCATCATATAAACTGCTAGTAGAGCAAGCAAAACTGAAGCAGGCGACCTCCAAGCATTTTAAGGATTTGATTCGCTTGCGCCGGACAGCAGAATGGTCTCGTTCTAATTTAGACACTGAAGTTACAACAACAAAAGAGAGCCCTGAGATTGAGCCTCTTCCATTTACTCTGGCCCATGACCGTTGTATCTCAGTAGTGCAAAAGCTCGTCCTGTTTCTTCTTTCCATGGATTTCACCTGCCATGCAGACCTCTTACTGTTTGTCTGCAAGGTAACCAATGGAGTTTTATTAACAATAATCTGCATACTCAGAACTTAA
Peptide sequence:
MEKEKIQSNKGSSYKLLVEQAKLKQATSKHFKDLIRLRRTAEWSRSNLDTEVTTTKESPEIEPLPFTLAHDRCISVVQKLVLFLLSMDFTCHADLLLFVCKVTNGVLLTIICILRT
IRESfinder result
IRESfinder score
0.719157648
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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