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mmu_circAlg9_519
Basic information of circular RNA
PanCircBase ID:
mmu_circAlg9_519
mm39_Chr. Position ID:
chr9|50690269|50703450|+
Gene name:
Alg9
Transcript:
ENSMUST00000034561.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
3,4,5,6,7
Exon/intron offsets:
0,4288,9183,10527,13093
Genomic length:
13181
Exon/intron sizes in nt:
135,71,89,136,88
Flanking exon/introns:
chr9:50687979-50690269|chr9:50703450-50703601
Splice length:
519
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ACACACTACCTCATCTACGGGAAGGGATTCCAGACATGGGAATATTCCCCCGTGTATGCCATCCGCTCATATGCTTACCTGCTGCTGCACGCCTGGCCAGCTGCATTTCATGCACGGATTCTGCAGACTAACAAGATTCTTGTATTCTACTTTTTGAGATGTCTCCTGGCTTTTGTGAGCTGTGTTTGTGAACTTTACTTTTATAAGGCTGTGTGCAAGAAGTTTGGGCTGCATGTGAGTCGAATGATGCTGGCCTTCCTGGTGCTCAGCACGGGCATGTTCTGCTCATCATCTGCATTCCTCCCCAGCAGCTTCTGCATGTACACCACGCTGATCGCCATGACGGGATGGTATATGGACAAGACACCCATTGCTGTGCTGGGAGTAGCAGCTGGTGCCATCTTAGGGTGGCCGTTTAGTGCAGCTCTTGGTTTACCCATCGCCTTCGACTTGCTGGCCAGGAAGCACAGGTGGAAGAGTTTTCTCCTCTGGTCCCTGGTGGCCCTGGCTCTCTTCTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTTTACCCATCGCCTTCG
60.39
GATGGCATACACGGGGGAAT
59.89
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAGCTCTTGGTTTACCCA
59.52
GATGGCATACACGGGGGAAT
59.89
163
PCR template sequence:
TGCAGCTCTTGGTTTACCCATCGCCTTCGACTTGCTGGCCAGGAAGCACAGGTGGAAGAGTTTTCTCCTCTGGTCCCTGGTGGCCCTGGCTCTCTTCTTGACACACTACCTCATCTACGGGAAGGGATTCCAGACATGGGAATATTCCCCCGTGTATGCCATCCGCTCATATGCTTACCTGCTGCTGCACGCCTGGCCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-370-3p(1), mmu-miR-183-5p(1), mmu-miR-350-3p(1), mmu-miR-544-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCTCTCTTCTTGACACACTACCTCA
siRNA sets
TAGTGTGTCAAGAAGAGAG,AGTGTGTCAAGAAGAGAGC,GTAGTGTGTCAAGAAGAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCALG9_519_ORF_1
1.113
0.197392534
0.965988333
795
ORF sequence:
ATGATGCTGGCCTTCCTGGTGCTCAGCACGGGCATGTTCTGCTCATCATCTGCATTCCTCCCCAGCAGCTTCTGCATGTACACCACGCTGATCGCCATGACGGGATGGTATATGGACAAGACACCCATTGCTGTGCTGGGAGTAGCAGCTGGTGCCATCTTAGGGTGGCCGTTTAGTGCAGCTCTTGGTTTACCCATCGCCTTCGACTTGCTGGCCAGGAAGCACAGGTGGAAGAGTTTTCTCCTCTGGTCCCTGGTGGCCCTGGCTCTCTTCTTGACACACTACCTCATCTACGGGAAGGGATTCCAGACATGGGAATATTCCCCCGTGTATGCCATCCGCTCATATGCTTACCTGCTGCTGCACGCCTGGCCAGCTGCATTTCATGCACGGATTCTGCAGACTAACAAGATTCTTGTATTCTACTTTTTGAGATGTCTCCTGGCTTTTGTGAGCTGTGTTTGTGAACTTTACTTTTATAAGGCTGTGTGCAAGAAGTTTGGGCTGCATGTGAGTCGAATGATGCTGGCCTTCCTGGTGCTCAGCACGGGCATGTTCTGCTCATCATCTGCATTCCTCCCCAGCAGCTTCTGCATGTACACCACGCTGATCGCCATGACGGGATGGTATATGGACAAGACACCCATTGCTGTGCTGGGAGTAGCAGCTGGTGCCATCTTAGGGTGGCCGTTTAGTGCAGCTCTTGGTTTACCCATCGCCTTCGACTTGCTGGCCAGGAAGCACAGGTGGAAGAGTTTTCTCCTCTGGTCCCTGGTGGCCCTGGCTCTCTTCTTG
Peptide sequence:
MMLAFLVLSTGMFCSSSAFLPSSFCMYTTLIAMTGWYMDKTPIAVLGVAAGAILGWPFSAALGLPIAFDLLARKHRWKSFLLWSLVALALFLTHYLIYGKGFQTWEYSPVYAIRSYAYLLLHAWPAAFHARILQTNKILVFYFLRCLLAFVSCVCELYFYKAVCKKFGLHVSRMMLAFLVLSTGMFCSSSAFLPSSFCMYTTLIAMTGWYMDKTPIAVLGVAAGAILGWPFSAALGLPIAFDLLARKHRWKSFLLWSLVALALFL
IRESfinder result
IRESfinder score
0.442557477
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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