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mmu_circRab27a_489
Basic information of circular RNA
PanCircBase ID:
mmu_circRab27a_489
mm39_Chr. Position ID:
chr9|72982674|72994482|+
Gene name:
Rab27a
Transcript:
ENSMUST00000184146.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
3,4,5,6
Exon/intron offsets:
0,7009,9538,11684
Genomic length:
11808
Exon/intron sizes in nt:
17,58,61,04,124
Flanking exon/introns:
chr9:72968406-72982674|chr9:72994482-73002539
Splice length:
489
Other database IDs:
circAtlas: mmu-Rab27a_0002
circBase: hsa_circ_0003863, circAtlas: hsa-RAB27A_0002, CIRCpedia: HSA_CIRCpedia_14799
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGGCACAGAGTTCTCCATCATGTCGGATGGAGATTACGATTACCTCATCAAGTTCTTGGCCTTGGGAGACTCTGGGGTAGGGAAGACCAGTGTACTCTACCAGTACACTGATGGCAAGTTCAACTCCAAATTCATCACCACAGTGGGCATTGATTTCAGGGAAAAGAGAGTGGTGTACAGAGCCAATGGGCCAGATGGAGCTGTGGGCCGAGGCCAGAGAATCCACCTGCAGTTATGGGACACGGCGGGGCAGGAGAGGTTTCGTAGCTTAACCACTGCATTCTTCAGGGACGCTATGGGTTTCCTGCTTCTGTTCGACCTGACAAATGAGCAAAGTTTCCTCAATGTCCGAAACTGGATAAGCCAGCTACAGATGCACGCGTACTGTGAAAACCCAGATATAGTGCTGTGTGGAAATAAGAGTGACCTGGAAGACCAGAGGGCAGTGAAAGAGGAGGAGGCCCGGGAACTTGCCGAGAAGTACGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGAGGGCAGTGAAAGAGG
60.04
TGGTCTTCCCTACCCCAGAG
59.96
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGAGGGCAGTGAAAGAGG
60.04
CTGGTCTTCCCTACCCCAGA
59.96
144
PCR template sequence:
GTGAAAACCCAGATATAGTGCTGTGTGGAAATAAGAGTGACCTGGAAGACCAGAGGGCAGTGAAAGAGGAGGAGGCCCGGGAACTTGCCGAGAAGTACGGGTGAGGCACAGAGTTCTCCATCATGTCGGATGGAGATTACGATTACCTCATCAAGTTCTTGGCCTTGGGAGACTCTGGGGTAGGGAAGACCAGTGTACTC
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-101a-3p(1), mmu-miR-136-5p(1), mmu-miR-324-3p(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCGAGAAGTACGGGTGAGGCACAGAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRAB27A_489_ORF_1
1.0154
0.372140226
0.823857832
471
ORF sequence:
ATGTCGGATGGAGATTACGATTACCTCATCAAGTTCTTGGCCTTGGGAGACTCTGGGGTAGGGAAGACCAGTGTACTCTACCAGTACACTGATGGCAAGTTCAACTCCAAATTCATCACCACAGTGGGCATTGATTTCAGGGAAAAGAGAGTGGTGTACAGAGCCAATGGGCCAGATGGAGCTGTGGGCCGAGGCCAGAGAATCCACCTGCAGTTATGGGACACGGCGGGGCAGGAGAGGTTTCGTAGCTTAACCACTGCATTCTTCAGGGACGCTATGGGTTTCCTGCTTCTGTTCGACCTGACAAATGAGCAAAGTTTCCTCAATGTCCGAAACTGGATAAGCCAGCTACAGATGCACGCGTACTGTGAAAACCCAGATATAGTGCTGTGTGGAAATAAGAGTGACCTGGAAGACCAGAGGGCAGTGAAAGAGGAGGAGGCCCGGGAACTTGCCGAGAAGTACGGGTGA
Peptide sequence:
MSDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGQERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYCENPDIVLCGNKSDLEDQRAVKEEEARELAEKYG
IRESfinder result
IRESfinder score
0.448772379
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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