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mmu_circBC005537_300
Basic information of circular RNA
PanCircBase ID:
mmu_circBC005537_300
mm39_Chr. Position ID:
chr13|24988764|24989967|+
Gene name:
BC005537
Transcript:
ENSMUST00000019276.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,1080
Genomic length:
1203
Exon/intron sizes in nt:
177,123
Flanking exon/introns:
chr13:24987492-24988764|chr13:24989967-24993868
Splice length:
300
Other database IDs:
CIRCpedia: MMU_CIRCpedia_14230, circAtlas: mmu-BC005537_0004
circAtlas: hsa-C6orf62_0007, CIRCpedia: HSA_CIRCpedia_54649
Human Ortholog IDs:
Mature spliced Sequence:
AAGAAAAAGTCAGCACTTTTTGAAGTGTCTGAGGTTATACCAGTCATGACAAATAATTACGAAGAAAATATTCTGAAAGGTGTGCGAGATTCCAGCTATTCCTTGGAAAGTTCGCTAGAGCTTCTACAGAAGGATGTGGTGCAGCTCCACGCCCCTCGGTACCAGTCTATGAGAAGGGATGTAATCGGCTGTACTCAGGAGATGGATTTCATTCTTTGGCCTCGGAATGATATTGAGAAAATCGTTTGTCTCCTGTTTTCTAGGTGGAAGGAATCTGACGAACCTTTTAGGCCTGTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTAGGTGGAAGGAATCTGACG
58.98
TAGCTGGAATCTCGCACACC
59.82
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTAGGTGGAAGGAATCTGACGA
60.31
TAGCTGGAATCTCGCACACC
59.82
140
PCR template sequence:
GATGGATTTCATTCTTTGGCCTCGGAATGATATTGAGAAAATCGTTTGTCTCCTGTTTTCTAGGTGGAAGGAATCTGACGAACCTTTTAGGCCTGTTCAGAAGAAAAAGTCAGCACTTTTTGAAGTGTCTGAGGTTATACCAGTCATGACAAATAATTACGAAGAAAATATTCTGAAAGGTGTGCGAGATTCCAGCTATT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-17-5p(1), mmu-miR-106b-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
TAGGCCTGTTCAGAAGAAAAAGTCAG
siRNA sets
TTTTCTTCTGAACAGGCCT, TTTTTCTTCTGAACAGGCC, TGACTTTTTCTTCTGAACA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBC005537_300_ORF_1
1.1678
0.141626923
0.817377172
555
ORF sequence:
ATGACAAATAATTACGAAGAAAATATTCTGAAAGGTGTGCGAGATTCCAGCTATTCCTTGGAAAGTTCGCTAGAGCTTCTACAGAAGGATGTGGTGCAGCTCCACGCCCCTCGGTACCAGTCTATGAGAAGGGATGTAATCGGCTGTACTCAGGAGATGGATTTCATTCTTTGGCCTCGGAATGATATTGAGAAAATCGTTTGTCTCCTGTTTTCTAGGTGGAAGGAATCTGACGAACCTTTTAGGCCTGTTCAGAAGAAAAAGTCAGCACTTTTTGAAGTGTCTGAGGTTATACCAGTCATGACAAATAATTACGAAGAAAATATTCTGAAAGGTGTGCGAGATTCCAGCTATTCCTTGGAAAGTTCGCTAGAGCTTCTACAGAAGGATGTGGTGCAGCTCCACGCCCCTCGGTACCAGTCTATGAGAAGGGATGTAATCGGCTGTACTCAGGAGATGGATTTCATTCTTTGGCCTCGGAATGATATTGAGAAAATCGTTTGTCTCCTGTTTTCTAGGTGGAAGGAATCTGACGAACCTTTTAGGCCTGTTCAG
Peptide sequence:
MTNNYEENILKGVRDSSYSLESSLELLQKDVVQLHAPRYQSMRRDVIGCTQEMDFILWPRNDIEKIVCLLFSRWKESDEPFRPVQKKKSALFEVSEVIPVMTNNYEENILKGVRDSSYSLESSLELLQKDVVQLHAPRYQSMRRDVIGCTQEMDFILWPRNDIEKIVCLLFSRWKESDEPFRPVQ
IRESfinder result
IRESfinder score
0.576052936
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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