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mmu_circClec16a_658
Basic information of circular RNA
PanCircBase ID:
mmu_circClec16a_658
mm39_Chr. Position ID:
chr16|10453109|10509454|+
Gene name:
Clec16a
Transcript:
ENSMUST00000115824.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
17,18,19,20,21
Exon/intron offsets:
0,3541,9515,53234,56140
Genomic length:
56345
Exon/intron sizes in nt:
5,11,29,12,11,52,205
Flanking exon/introns:
chr16:10448665-10453109|chr16:10509454-10512483
Splice length:
658
Other database IDs:
circBase: mmu_circ_0006048, CIRCpedia: MMU_CIRCpedia_1749, circAtlas: mmu-Clec16a_0045
Human Ortholog IDs:
Mature spliced Sequence:
GGAGAAGAGATTTTCTTGGACATGTTTGAAGATGAGTACAGGAGCATGACAATAAAGCCCATGAATGTGGAGTATCTCATGATGGATGCTTCCATCCTCCTGCCCCCAACGGGCACTCCACTGACTGGCATTGACTTTGTGAAGCGGCTGCCATGTGGTGATGTGGAGAAGACGAGGCGGGCCATCCGGGTATTCTTCATGCTGCGTTCCCTGTCACTGCAGCTGCGAGGGGAACCTGAGACCCAGTTGCCACTGACTCGGGAGGAGGACCTGATCAAAACAGATGATGTCTTGGATCTGAATAACAGTGACTTGATTGCATGCACAGTCATCACCAAGGATGGTGGTATGGTCCAGCGGTTCCTGGCTGTGGACATTTACCAGATGAGCCTGGTGGAGCCTGACGTATCCAGACTTGGCTGGGGAGTGGTCAAGTTTGCTGGCCTTCTACAGGACATGCAGGTGACAGGAGTGGAGGATGACAGCCGTGCCCTGAACATCACCATTCACAAGCCTGCCTCCAGCCCGCACTCTAAGCCCTTCCCTATCCTGCAGGCCACCTTCGTGTTCTCGGATCATATCCGCTGCATTATTGCCAAGCAGCGCCTGGCCAAGGGCCGCATCCAGGCCAGGCGCATGAAGATGCAGAGGATAGCCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTTCGTGTTCTCGGATCA
58.75
TGGGCTTTATTGTCATGCTCCT
60.03
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATTATTGCCAAGCAGCGCC
60.87
ACTCCACATTCATGGGCTTT
57.39
144
PCR template sequence:
ACCTTCGTGTTCTCGGATCATATCCGCTGCATTATTGCCAAGCAGCGCCTGGCCAAGGGCCGCATCCAGGCCAGGCGCATGAAGATGCAGAGGATAGCCGGGAGAAGAGATTTTCTTGGACATGTTTGAAGATGAGTACAGGAGCATGACAATAAAGCCCATGAATGTGGAGTATCTCATGATGGATGCTTCCATCCTCC
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-181b-5p(1), mmu-miR-182-5p(1), mmu-miR-224-5p(1), mmu-miR-27a-5p(1), mmu-miR-350-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGAGGATAGCCGGGAGAAGAGATTT
siRNA sets
TCTCTTCTCCCGGCTATCC, AAATCTCTTCTCCCGGCTA, CTCTTCTCCCGGCTATCCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCLEC16A_658_ORF_1
1.2488
0.452223534
0.975954707
666
ORF sequence:
ATGTTTGAAGATGAGTACAGGAGCATGACAATAAAGCCCATGAATGTGGAGTATCTCATGATGGATGCTTCCATCCTCCTGCCCCCAACGGGCACTCCACTGACTGGCATTGACTTTGTGAAGCGGCTGCCATGTGGTGATGTGGAGAAGACGAGGCGGGCCATCCGGGTATTCTTCATGCTGCGTTCCCTGTCACTGCAGCTGCGAGGGGAACCTGAGACCCAGTTGCCACTGACTCGGGAGGAGGACCTGATCAAAACAGATGATGTCTTGGATCTGAATAACAGTGACTTGATTGCATGCACAGTCATCACCAAGGATGGTGGTATGGTCCAGCGGTTCCTGGCTGTGGACATTTACCAGATGAGCCTGGTGGAGCCTGACGTATCCAGACTTGGCTGGGGAGTGGTCAAGTTTGCTGGCCTTCTACAGGACATGCAGGTGACAGGAGTGGAGGATGACAGCCGTGCCCTGAACATCACCATTCACAAGCCTGCCTCCAGCCCGCACTCTAAGCCCTTCCCTATCCTGCAGGCCACCTTCGTGTTCTCGGATCATATCCGCTGCATTATTGCCAAGCAGCGCCTGGCCAAGGGCCGCATCCAGGCCAGGCGCATGAAGATGCAGAGGATAGCCGGGAGAAGAGATTTTCTTGGACATGTTTGA
Peptide sequence:
MFEDEYRSMTIKPMNVEYLMMDASILLPPTGTPLTGIDFVKRLPCGDVEKTRRAIRVFFMLRSLSLQLRGEPETQLPLTREEDLIKTDDVLDLNNSDLIACTVITKDGGMVQRFLAVDIYQMSLVEPDVSRLGWGVVKFAGLLQDMQVTGVEDDSRALNITIHKPASSPHSKPFPILQATFVFSDHIRCIIAKQRLAKGRIQARRMKMQRIAGRRDFLGHV
IRESfinder result
IRESfinder score
0.402498707
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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