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mmu_circAlg9_1307
Basic information of circular RNA
PanCircBase ID:
mmu_circAlg9_1307
mm39_Chr. Position ID:
chr9|50694557|50734015|+
Gene name:
Alg9
Transcript:
ENSMUST00000034561.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
4,5,6,7,8,9,10,11,12,13,14
Exon/intron offsets:
0,4895,6239,8805,9044,16861,18680,22044,22964,25419,39327
Genomic length:
39458
Exon/intron sizes in nt:
71,89,136,88,106,123,155,130,148,130,131
Flanking exon/introns:
chr9:50690404-50694557|chr9:50734015-50754033
Splice length:
1307
Other database IDs:
circBase: mmu_circ_0015654, CIRCpedia: MMU_CIRCpedia_21940, circAtlas: mmu-Alg9_0007
CIRCpedia: HSA_CIRCpedia_75235
Human Ortholog IDs:
Mature spliced Sequence:
ATTCTTGTATTCTACTTTTTGAGATGTCTCCTGGCTTTTGTGAGCTGTGTTTGTGAACTTTACTTTTATAAGGCTGTGTGCAAGAAGTTTGGGCTGCATGTGAGTCGAATGATGCTGGCCTTCCTGGTGCTCAGCACGGGCATGTTCTGCTCATCATCTGCATTCCTCCCCAGCAGCTTCTGCATGTACACCACGCTGATCGCCATGACGGGATGGTATATGGACAAGACACCCATTGCTGTGCTGGGAGTAGCAGCTGGTGCCATCTTAGGGTGGCCGTTTAGTGCAGCTCTTGGTTTACCCATCGCCTTCGACTTGCTGGCCAGGAAGCACAGGTGGAAGAGTTTTCTCCTCTGGTCCCTGGTGGCCCTGGCTCTCTTCTTGGTGCCCGTGGTGGTCATTGACAGCTACTATTACGGGAAGTTGGTGGTTGCCCCTCTCAACATTGTTTTGTATAACGTCTTTACGTCTCATGGACCTGATCTTTATGGTACAGAACCATGGTATTTCTATTTAATCAATGGATTTCTGAACTTCAATGTTGCCTTTGCTTTGGCTCTTCTGGTTTTGCCACTGACTTTCCTTATGGAGTACCTGCTGCAGAGGTTCCATGTTCAGAATTTAGGACACCCGTATTGGCTGACCTTGGCGCCAATGTATATTTGGTTTATAATTTTCTTCATCCAGCCTCATAAAGAAGAGCGCTTTCTCTTCCCAGTCTATCCGCTCATATGCCTCTGTGGTGCTGTTGCTCTTTCTGCACTTCAGAAATGCTACCACTTTGTGTTTCAACGATACCGCCTGGAGCATTACACGGTGACGTCCAACTGGCTGGCGCTGGGCACAGTTTTCCTGTTTGGGCTCTTGTCGTTCTCCCGCTCTGTGGCTCTGTTCAGAGGATACCACGGGCCCCTTGATTTATATCCAGAATTTTACAGAATTGCCACAGACCCAACCATCCACACTGTCCCAGAAGGCAGGCCCGTGAACGTCTGTGTGGGAAAAGAGTGGTATCGATTTCCCAGTAGCTTCCTTCTGCCTGACAATTGGCAGCTTCAGTTCATTCCATCAGAGTTCAGAGGTCAGCTACCAAAGCCTTTCGCAGAGGGACCACTGGCCACCAGGACTGTTCCCACTCACATGAACGACCAGAACCGAGAGGAGCCTTCCAGATACATTGACATCAGCAAATGCCATTACTTAGTGGATTTGGATACCATGAGAGAAACACCTCGGGAGCCAAACTACTCATCCCACAGAGAAGAGTGGGTCAGCCTGGCTCACAGACCATTCCTGGATGCGTCTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGAAGAGTGGGTCAGCCT
59.88
ATGCAGCCCAAACTTCTTGC
59.68
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCGGGAGCCAAACTACTC
59.82
ATGCAGCCCAAACTTCTTGC
59.68
176
PCR template sequence:
ATTTGGATACCATGAGAGAAACACCTCGGGAGCCAAACTACTCATCCCACAGAGAAGAGTGGGTCAGCCTGGCTCACAGACCATTCCTGGATGCGTCTAGATTCTTGTATTCTACTTTTTGAGATGTCTCCTGGCTTTTGTGAGCTGTGTTTGTGAACTTTACTTTTATAAGGCTGTGTGCAAGAAGTTTGGGCTGCATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-335-5p(1), mmu-miR-132-3p(1), mmu-miR-138-5p(1), mmu-miR-185-5p(1), mmu-miR-22-3p(1), mmu-miR-370-3p(1), mmu-miR-183-5p(1), mmu-miR-188-3p(1), mmu-miR-350-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGATGCGTCTAGATTCTTGTATTCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCALG9_1307_ORF_1
0.8588
0.143121611
0.996628939
1221
ORF sequence:
ATGATGCTGGCCTTCCTGGTGCTCAGCACGGGCATGTTCTGCTCATCATCTGCATTCCTCCCCAGCAGCTTCTGCATGTACACCACGCTGATCGCCATGACGGGATGGTATATGGACAAGACACCCATTGCTGTGCTGGGAGTAGCAGCTGGTGCCATCTTAGGGTGGCCGTTTAGTGCAGCTCTTGGTTTACCCATCGCCTTCGACTTGCTGGCCAGGAAGCACAGGTGGAAGAGTTTTCTCCTCTGGTCCCTGGTGGCCCTGGCTCTCTTCTTGGTGCCCGTGGTGGTCATTGACAGCTACTATTACGGGAAGTTGGTGGTTGCCCCTCTCAACATTGTTTTGTATAACGTCTTTACGTCTCATGGACCTGATCTTTATGGTACAGAACCATGGTATTTCTATTTAATCAATGGATTTCTGAACTTCAATGTTGCCTTTGCTTTGGCTCTTCTGGTTTTGCCACTGACTTTCCTTATGGAGTACCTGCTGCAGAGGTTCCATGTTCAGAATTTAGGACACCCGTATTGGCTGACCTTGGCGCCAATGTATATTTGGTTTATAATTTTCTTCATCCAGCCTCATAAAGAAGAGCGCTTTCTCTTCCCAGTCTATCCGCTCATATGCCTCTGTGGTGCTGTTGCTCTTTCTGCACTTCAGAAATGCTACCACTTTGTGTTTCAACGATACCGCCTGGAGCATTACACGGTGACGTCCAACTGGCTGGCGCTGGGCACAGTTTTCCTGTTTGGGCTCTTGTCGTTCTCCCGCTCTGTGGCTCTGTTCAGAGGATACCACGGGCCCCTTGATTTATATCCAGAATTTTACAGAATTGCCACAGACCCAACCATCCACACTGTCCCAGAAGGCAGGCCCGTGAACGTCTGTGTGGGAAAAGAGTGGTATCGATTTCCCAGTAGCTTCCTTCTGCCTGACAATTGGCAGCTTCAGTTCATTCCATCAGAGTTCAGAGGTCAGCTACCAAAGCCTTTCGCAGAGGGACCACTGGCCACCAGGACTGTTCCCACTCACATGAACGACCAGAACCGAGAGGAGCCTTCCAGATACATTGACATCAGCAAATGCCATTACTTAGTGGATTTGGATACCATGAGAGAAACACCTCGGGAGCCAAACTACTCATCCCACAGAGAAGAGTGGGTCAGCCTGGCTCACAGACCATTCCTGGATGCGTCTAGATTCTTGTATTCTACTTTTTGA
Peptide sequence:
MMLAFLVLSTGMFCSSSAFLPSSFCMYTTLIAMTGWYMDKTPIAVLGVAAGAILGWPFSAALGLPIAFDLLARKHRWKSFLLWSLVALALFLVPVVVIDSYYYGKLVVAPLNIVLYNVFTSHGPDLYGTEPWYFYLINGFLNFNVAFALALLVLPLTFLMEYLLQRFHVQNLGHPYWLTLAPMYIWFIIFFIQPHKEERFLFPVYPLICLCGAVALSALQKCYHFVFQRYRLEHYTVTSNWLALGTVFLFGLLSFSRSVALFRGYHGPLDLYPEFYRIATDPTIHTVPEGRPVNVCVGKEWYRFPSSFLLPDNWQLQFIPSEFRGQLPKPFAEGPLATRTVPTHMNDQNREEPSRYIDISKCHYLVDLDTMRETPREPNYSSHREEWVSLAHRPFLDASRFLYSTF
IRESfinder result
IRESfinder score
0.740212241
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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