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mmu_circAgl_1019
Basic information of circular RNA
PanCircBase ID:
mmu_circAgl_1019
mm39_Chr. Position ID:
chr3|116551887|116570308|-
Gene name:
Agl
Transcript:
ENSMUST00000040603.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
27,26,25,24,23,22,21
Exon/intron offsets:
0,452,10547,13101,14148,14525,18290
Genomic length:
18421
Exon/intron sizes in nt:
11,22,26,10,31,76,13,40,00,000
Flanking exon/introns:
chr3:116548657-116551887|chr3:116570308-116572267
Splice length:
1019
Other database IDs:
circAtlas: hsa-AC096949_0031, CIRCpedia: HSA_CIRCpedia_175391
Human Ortholog IDs:
Mature spliced Sequence:
CATTGCCTCTAAATTGACTTTGGCTGAGCTAAACCAGGTACTTTACCGATGTGAATCAGAAGAACAAGAAGACGGTGGCGGTTGCTATGACATACCAAACTGGTCATCACTTAAGTACGCAGGACTTCAAGGATTAATGTCCGTGTTGGCAGAAATAAGACCGAAGAATGACCTGGGGCATCCATTCTGTGAAAACTTGAGGTCGGGAGACTGGATGATCGACTACGTGAGTGGTCGGCTTATTTCAAGATCAGGAAGTATTGCTGAGGTTGGTAAATGGCTGCAGGCTATGTTCTTCTACCTGAAGCAGATCCCACGCTACCTCATCCCCTGCTACTTTGACGCTATATTGATTGGTGCATACACCACTCTGCTGGATGTAGCGTGGAAACAGATGTCAAGCTTTGTTCAGAACGGATCCACCTTCGTGAAGCACCTGTCACTGGGTTCTGTCCAGATGTGTGGAGTCGGGAAATGCCCTTGTCTGCCGCTGCTTTCTCCCTCGCTCCTGGATGTGCCGTGCAGGTTAAATGAGATCACAAAGGAGAAGGAGCAGTGCTGTGCCTCCTTAGCTGCAGGCTTACCTCACTTTTCTTCCGGTCTTTTTCGCTGCTGGGGGAGGGACACTTTCATTGCCCTTCGAGGGATGCTGCTGGTTACTGGACGCTACCTGGAAGCCAGGAACATCATTTTAGCGTTTGCTAGTACCCTGCGGCACGGTCTCATCCCTAACCTCCTCGGCGAAGGGACATATGCCAGGTACAACTGCCGGGACGCCGTGTGGTGGTGGCTGCAGTGCATTCAGGACTATTGCAGGACAGTTCCAAACGGCCTGGACATCCTCAAATGCCCGGTGTCCAGGATGTATCCAACAGATGACTCCGCACCCTTGCCTGCTGGGACACTGGACCAGCCTTTGTTTGAAGTCATCCAGGAAGCTATGCAGAGGCACATGCAGGGCATCCAGTTCCGAGAGAGGAACGCCGGTCCACAGATCGACCGAAACATGAAGGACGAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCATCCAGTTCCGAGAGAGG
59.9
CGCCACCGTCTTCTTGTTCT
60.6
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCATCCAGTTCCGAGAGAG
59.9
CGCCACCGTCTTCTTGTTCT
60.6
141
PCR template sequence:
TTTGAAGTCATCCAGGAAGCTATGCAGAGGCACATGCAGGGCATCCAGTTCCGAGAGAGGAACGCCGGTCCACAGATCGACCGAAACATGAAGGACGAGGCATTGCCTCTAAATTGACTTTGGCTGAGCTAAACCAGGTACTTTACCGATGTGAATCAGAAGAACAAGAAGACGGTGGCGGTTGCTATGACATACCAAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-221-3p(1), mmu-miR-222-3p(1), mmu-miR-324-5p(1), mmu-miR-214-3p(1), mmu-miR-503-5p(1), mmu-miR-362-5p(1), mmu-miR-107-3p(1), mmu-miR-802-5p(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
ATGAAGGACGAGGCATTGCCTCTAAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAGL_1019_ORF_1
0.8767
0.24164635
0.978590434
900
ORF sequence:
ATGTCCGTGTTGGCAGAAATAAGACCGAAGAATGACCTGGGGCATCCATTCTGTGAAAACTTGAGGTCGGGAGACTGGATGATCGACTACGTGAGTGGTCGGCTTATTTCAAGATCAGGAAGTATTGCTGAGGTTGGTAAATGGCTGCAGGCTATGTTCTTCTACCTGAAGCAGATCCCACGCTACCTCATCCCCTGCTACTTTGACGCTATATTGATTGGTGCATACACCACTCTGCTGGATGTAGCGTGGAAACAGATGTCAAGCTTTGTTCAGAACGGATCCACCTTCGTGAAGCACCTGTCACTGGGTTCTGTCCAGATGTGTGGAGTCGGGAAATGCCCTTGTCTGCCGCTGCTTTCTCCCTCGCTCCTGGATGTGCCGTGCAGGTTAAATGAGATCACAAAGGAGAAGGAGCAGTGCTGTGCCTCCTTAGCTGCAGGCTTACCTCACTTTTCTTCCGGTCTTTTTCGCTGCTGGGGGAGGGACACTTTCATTGCCCTTCGAGGGATGCTGCTGGTTACTGGACGCTACCTGGAAGCCAGGAACATCATTTTAGCGTTTGCTAGTACCCTGCGGCACGGTCTCATCCCTAACCTCCTCGGCGAAGGGACATATGCCAGGTACAACTGCCGGGACGCCGTGTGGTGGTGGCTGCAGTGCATTCAGGACTATTGCAGGACAGTTCCAAACGGCCTGGACATCCTCAAATGCCCGGTGTCCAGGATGTATCCAACAGATGACTCCGCACCCTTGCCTGCTGGGACACTGGACCAGCCTTTGTTTGAAGTCATCCAGGAAGCTATGCAGAGGCACATGCAGGGCATCCAGTTCCGAGAGAGGAACGCCGGTCCACAGATCGACCGAAACATGAAGGACGAGGCATTGCCTCTAAATTGA
Peptide sequence:
MSVLAEIRPKNDLGHPFCENLRSGDWMIDYVSGRLISRSGSIAEVGKWLQAMFFYLKQIPRYLIPCYFDAILIGAYTTLLDVAWKQMSSFVQNGSTFVKHLSLGSVQMCGVGKCPCLPLLSPSLLDVPCRLNEITKEKEQCCASLAAGLPHFSSGLFRCWGRDTFIALRGMLLVTGRYLEARNIILAFASTLRHGLIPNLLGEGTYARYNCRDAVWWWLQCIQDYCRTVPNGLDILKCPVSRMYPTDDSAPLPAGTLDQPLFEVIQEAMQRHMQGIQFRERNAGPQIDRNMKDEALPLN
IRESfinder result
IRESfinder score
0.386423853
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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