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mmu_ciAgl_1369
Basic information of circular RNA
PanCircBase ID:
mmu_ciAgl_1369
mm39_Chr. Position ID:
chr3|116576732|116578101|-
Gene name:
Agl
Transcript:
ENSMUST00000040603.14
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
12
Exon/intron offsets:
0
Genomic length:
1369
Exon/intron sizes in nt:
1369
Flanking exon/introns:
chr3:116576292-116578101
Splice length:
1369
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTACGGACACCTCTATTGACAAAGGCAGTGATACCTGTAGCCTCCAAAGTCCCTGCCAGTGTGCTGGCTGTACACTGCTGTGGATTTGGTAGAAGTACTGGCACATATGACAGCTTATCTAATTCTAACAACCTTCGGACATTCCGCTGTAAAATGTTTAATAAGTTAGTTTTTACATTTAGGAAAAAGGTCATATTTTTATGTAACAGCGTGCATAATAGGTGTTTATTGGTAATATGTAAAATGCTAAGTGGTCTTTTAGGTTGTTTCCAGTATAGATTGTTAGCAGTGTAACGTTGAATGGCTTTACAGTGTAGTGATGAGTCAGCTCTGGCTTCCGTTTCACTTTAGGGGTACTTGGAACAGTGCACATTTTAGGACCGGTCTGTTCTATACTGAGCTGCACTCCTAGCCCTTGCAGTAAATAGTCAAACTCTAGTACTCTGACATCCTGAGGCTAGTTTAAACCTCACTGAGTCCTGTTTAATCAGTCATCTTTAGAAACATTAAGTGTAAGCTAACCATAATTTGTACTTTGGGCTTTTATTTGAATAATGTCAGTATTGCTGCATTTTTCTTACCTACTACAACTTCCTAAAAACACATAATTTTATCCTAGTTGTAAGATCTTTGGTAGTTTTTAAATGACAATTTATGAAAATATGTGCTCATAAACCCAGTTTAGTGAATCAAGGCTTTAATCCCACCATTCAGGAGGCAGAGGCAGATGAACAACTCTGTGAGTTTAGGCCAGCCTCATCTATATAGTGAGTTCCATGAGCAGACATAGTCAACATATCTCAAAACAAAACAAAAAAGGTGCGAGGGATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATATCAGCTTCTAGAGTTTATGTGCTGTATGTGTCTGTGTGAGTGTGTGTGTGTGAGAGAGAGAGGAAGAGAGAGAGAGAGATTCCATATGTCCATATAGCTTTAATTTGGGGGATTTGATAGAAAACCTTAGCTAAGCTAGCAGAGCATTATTTACCTTCAGTAATAAGCAGAGGGTCCTTTTCAGTTATGCTTTTGACAATAGTAAAAAAAAACATATTTATAACATTATAGAAAAGTGAATTTTAAACAGCAAAGTCCTCTATAATTCTACTTCTTAGCTGATAAAAATTATAGGCATTTTACTAACCTATGTGTAAGAATTCCTTCTAGAATGGAATTGGAAACAATCTGATTATTAGACACTATTTTCTGTTTCTCTGGTAAATCATTAACACCAGTGTTACACCTGCATCTCACACACACACACACAGACACACACACAGACACACACAGACACACACTCACACACACACACCACACACACACAGAAATGGGAAGGTACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTGCATCTCACACACACA
59.53
GGGACTTTGGAGGCTACAGG
59.75
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTGCATCTCACACACACA
59.53
GCAGGGACTTTGGAGGCTAC
60.39
156
PCR template sequence:
ACCTGCATCTCACACACACACACACAGACACACACACAGACACACACAGACACACACTCACACACACACACCACACACACACAGAAATGGGAAGGTACTGGTACGGACACCTCTATTGACAAAGGCAGTGATACCTGTAGCCTCCAAAGTCCCTGCCAGTGTGCTGGCTGTACACTGCTGTGGATTTGGTAGAAGTACTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
18
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-20a-5p(1), mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-200b-3p(1), mmu-miR-335-5p(1), mmu-miR-191-5p(1), mmu-miR-466d-3p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-1187(1), mmu-miR-190b-5p(1), mmu-miR-335-3p(1), mmu-miR-3087-3p(1), mmu-miR-466b-3p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGGAAGGTACTGGTACGGACACCTC
siRNA sets
TCCGTACCAGTACCTTCCC, GTCCGTACCAGTACCTTCC, TGTCCGTACCAGTACCTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.847845593
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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