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mmu_ciRxrb_491
Basic information of circular RNA
PanCircBase ID:
mmu_ciRxrb_491
mm39_Chr. Position ID:
chr17|34252018|34252509|+
Gene name:
Rxrb
Transcript:
ENSMUST00000044858.16
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
491
Exon/intron sizes in nt:
491
Flanking exon/introns:
chr17:34252018-34252528
Splice length:
491
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGAGAGAGGTTGTGGCCTGCTTATTGCCACTGTGCCTTCAGTTCCTTGTTCTCAACTTCTCACCCCCACTCCCCATCTTTGGGTGAACTTCCCCAAAACCCGTTGATCTTTCTAGTTCTCTAATCATAGCAAGCCTGTGGTCTCGGACCCCTTGCTCTTCCTGAAGGGGGTGGTCTGTGGGGGTGCATGCTTCATCAGCTCTGTTTTGAAAACAAACCCTAAGCCTGCAGGGAATATTTTTGATGTCCTGTTCAGCTCACGGTGGCTTTGCTGCCCTTTTCGCTTCAATATGCCTGCCCTTCTAAGACCTGTGCCCTTCAGGGCCACTGTAGCACAATTACAGAAGGGTGGACATCACTCTTGGTGTCACGTGCAAGGAAGGCCCTTTACGTTAGACAGTAGTGTCCCCAGTACCTTCTGGAATAGTACAGGGCTTGCTCACAAGCAGGAAGTGGTTTGCCTGACATATGAGAGTCTCCTGTGACTTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGTAGTGTCCCCAGTACCT
59.57
GGAGTGGGGGTGAGAAGTTG
59.96
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAGTACAGGGCTTGCTCACA
58.36
GGAGTGGGGGTGAGAAGTTG
59.96
140
PCR template sequence:
ACGTTAGACAGTAGTGTCCCCAGTACCTTCTGGAATAGTACAGGGCTTGCTCACAAGCAGGAAGTGGTTTGCCTGACATATGAGAGTCTCCTGTGACTTCGTGAGAGAGAGGTTGTGGCCTGCTTATTGCCACTGTGCCTTCAGTTCCTTGTTCTCAACTTCTCACCCCCACTCCCCATCTTTGGGTGAACTTCCCCAAA
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-124-3p(1), mmu-miR-146a-5p(1), mmu-miR-139-5p(1), mmu-miR-501-3p(1), mmu-miR-224-5p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCCTGTGACTTCGTGAGAGAGAGGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRXRB_491_ORF_3
0.5472
-0.262297838
0.013924111
147
ORF sequence:
ATGAGAGTCTCCTGTGACTTCGTGAGAGAGAGGTTGTGGCCTGCTTATTGCCACTGTGCCTTCAGTTCCTTGTTCTCAACTTCTCACCCCCACTCCCCATCTTTGGGTGAACTTCCCCAAAACCCGTTGATCTTTCTAGTTCTCTAA
Peptide sequence:
MRVSCDFVRERLWPAYCHCAFSSLFSTSHPHSPSLGELPQNPLIFLVL
IRESfinder result
IRESfinder score
0.808851971
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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