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mmu_circAnkrd28_716
Basic information of circular RNA
PanCircBase ID:
mmu_circAnkrd28_716
mm39_Chr. Position ID:
chr14|31465179|31477760|-
Gene name:
Ankrd28
Transcript:
ENSMUST00000227863.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
8,7,6,5,4
Exon/intron offsets:
0,1998,3690,5420,12510
Genomic length:
12581
Exon/intron sizes in nt:
213,143,88,201,71
Flanking exon/introns:
chr14:31458795-31465179|chr14:31477760-31486210
Splice length:
716
Other database IDs:
CIRCpedia: MMU_CIRCpedia_16247, circAtlas: mmu-Ankrd28_0003
circBase: hsa_circ_0064515, circAtlas: hsa-ANKRD28_0004, CIRCpedia: HSA_CIRCpedia_44219
Human Ortholog IDs:
Mature spliced Sequence:
GAGCTAGAGTTAATGCCAAAGACAGCAAATGGTTGACACCTTTACACAGAGCAGTTGCATCGTGTAGTGAGGAAGCAGTTCAGATACTTTTGAAGCATTCTGCAGATGTTAATGCTCGAGATAAAAATTGGCAGACCCCTTTACACATAGCTGCTGCTAATAAAGCTGTAAAGTGCGCTGAATCTTTGGTACCTCTTCTGAGCAATGTGAACGTGTCCGACCGAGCAGGAAGAACTGCATTACATCATGCAGCTTTCAGTGGGCATGGTGAGATGGTCAAACTACTCTTGTCCAGAGGTGCCAATATAAATGCTTTTGACAAGAAAGATAGGCGTGCAATCCATTGGGCAGCATATATGGGTCACATTGAAGTAGTAAAATTACTTGTATCTCATGGAGCTGAAGTGACATGTAAGGATAAGAAGTCTTACACACCTCTTCATGCAGCAGCCTCTAGTGGAATGATCAGTGTAGTCAAATATCTTCTAGATCTTGGAGTTGATATGAATGAACCAAATGCCTATGGAAACACACCTCTTCATGTGGCCTGTTACAATGGACAAGATGTTGTTGTGAATGAGCTCATAGACTGTGGTGCTAATGTCAATCAGAAGAATGAGAAAGGGTTCACTCCTTTGCACTTTGCTGCTGCATCAACACATGGAGCACTGTGTTTAGAACTTCTGGTTGGCAATGGAGCTGATGTCAATATGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTTTGCACTTTGCTGCTG
59.61
CACGATGCAACTGCTCTGTG
59.83
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCCTTTGCACTTTGCTGC
59.61
CACGATGCAACTGCTCTGTG
59.83
151
PCR template sequence:
TGAGAAAGGGTTCACTCCTTTGCACTTTGCTGCTGCATCAACACATGGAGCACTGTGTTTAGAACTTCTGGTTGGCAATGGAGCTGATGTCAATATGAAGGAGCTAGAGTTAATGCCAAAGACAGCAAATGGTTGACACCTTTACACAGAGCAGTTGCATCGTGTAGTGAGGAAGCAGTTCAGATACTTTTGAAGCATTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-106a-5p(1), mmu-miR-211-5p(1), mmu-miR-322-5p(1), mmu-miR-106b-5p(1), mmu-miR-148a-3p(1), mmu-miR-23a-3p(1), mmu-miR-25-3p(1), mmu-miR-363-3p(1), mmu-miR-382-3p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-344-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTCAATATGAAGGAGCTAGAGTTAA
siRNA sets
TTAACTCTAGCTCCTTCAT,TAACTCTAGCTCCTTCATA,TCTAGCTCCTTCATATTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCANKRD28_716_ORF_1
1.0042
0.041244908
0.555606088
480
ORF sequence:
ATGGTCAAACTACTCTTGTCCAGAGGTGCCAATATAAATGCTTTTGACAAGAAAGATAGGCGTGCAATCCATTGGGCAGCATATATGGGTCACATTGAAGTAGTAAAATTACTTGTATCTCATGGAGCTGAAGTGACATGTAAGGATAAGAAGTCTTACACACCTCTTCATGCAGCAGCCTCTAGTGGAATGATCAGTGTAGTCAAATATCTTCTAGATCTTGGAGTTGATATGAATGAACCAAATGCCTATGGAAACACACCTCTTCATGTGGCCTGTTACAATGGACAAGATGTTGTTGTGAATGAGCTCATAGACTGTGGTGCTAATGTCAATCAGAAGAATGAGAAAGGGTTCACTCCTTTGCACTTTGCTGCTGCATCAACACATGGAGCACTGTGTTTAGAACTTCTGGTTGGCAATGGAGCTGATGTCAATATGAAGGAGCTAGAGTTAATGCCAAAGACAGCAAATGGTTGA
Peptide sequence:
MVKLLLSRGANINAFDKKDRRAIHWAAYMGHIEVVKLLVSHGAEVTCKDKKSYTPLHAAASSGMISVVKYLLDLGVDMNEPNAYGNTPLHVACYNGQDVVVNELIDCGANVNQKNEKGFTPLHFAAASTHGALCLELLVGNGADVNMKELELMPKTANG
IRESfinder result
IRESfinder score
0.554944403
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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