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mmu_ciArntl_1682
Basic information of circular RNA
PanCircBase ID:
mmu_ciArntl_1682
mm39_Chr. Position ID:
chr7|112900864|112902546|+
Gene name:
Arntl
Transcript:
ENSMUST00000047321.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
14
Exon/intron offsets:
0
Genomic length:
1682
Exon/intron sizes in nt:
1682
Flanking exon/introns:
chr7:112900864-112902547
Splice length:
1682
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGCTGGGCCACAGGAAGAGTCTGATGTTATAAAGTATGTTTTTTTCTACACTGGTCCAATTAATTGTTCTTCCAGAGAAAATTTCCCCTACTGTGTGGGAGTCAGCCATTTCAGGACCCTTCAGGCCAAAACATGTGAAAGAAGAAAGGACTGTTGGCTCCCAGAACCATTTGTTCCTTAGAGATGCTCAGACTCTACTCACTGAATGAGGGTTTTCTTTATAGAGGCCGTGACTCCTGGAAGAGCCATCTCTTGGTTAGGATTCACTCCGAGCCTGCACAGAGTTCTTATGTCCTGAGCTGCTCTGATTTTCTTTTCATAATTGGCTGCACTGCCTCCAGTATTTTCATTGACACATGGTGTCCAGGTTTTATTTTTATTGCTGTGACAAAATACCCTGATAAAAAGCAACTTAGTTTATTTCAGTTCACGATTCCAGATTACAGTTCTAGAGGGAAGAAGTCACAGTGGCAGGAGTGACAACTGGTCACATCATACCCACAGTCTAGATTAAATAGAAAGTGAATATATGCATGCTCACTGTTTGCTTGCTATTCTCAGCTCAAATTCTCCACTCAACTTCTCTTACACAGTTCAGGATTGCACCTACGGAATGGTGCTGCCCACAGTGGACTATGTCTTCCATATAAGTTAATGTTATTAAGACAATCCCTTATAGACATGCCTGTAGGCCAGCTCAATATATCCCTTGCGGAGATTCTCTTACCAAGTGATTCTAGGTTGTATCAGGATGAGAAAGTTGACCATCACAGATGGTATGGCCACATATGCAGCCCCTCCCTTCACTGTTTCTACCAGAATTTATTCAGTTGCCGTAGGCATTTACTTATGAAGAGTCCCCATTTTCACCATCCCACTGCCTTGACTCTGGTTCAGGAAGTCTCCTGCTTCCTCTCTCACCCTGGGTCCACCATTCGTAGTTATTTTATTGTTAAAAAAGATCAAGCGTGATAATATCATATCCCTGCTTAATGTGACAGTATTCAAACTCAAACCCAACCACTTCTGATAGGTACAAGATCCAAGACATCCCACCTCAAATCTCCTGGTCCTGACCCAGTTCCTTTGGTTTTACTTCCCAGATTTGTCCTATCTGTGACCCTGTCACCTGTGCCTGGATGCTAGCCCCTGTCACCCCTTAGCCTTTACGCAGTTCTTTCCTGCTCTTGGATAGTGTGTTCAAGGAGCCTCAGTCACTCCCCTCCAAAGGGCAGGAGCCATATTCTGCCTCTTTTGTCTCTCATACTTGGGACTTGAAAAGTGCTCGTGATGTCTGTTTCTCAAAGGATGAGATCTGAACACATCAGTGGCCTCTACTGACTCAGATTTGCTAAACTGGCCAAGGACTGTTTTGTCCTGGGGCTTTGTGATAGGAAAGGAGCATGGCTGGTGCACAGGTCACAGCTGACTTGAGTGTTCCTGAAAGCTTTCATTCTCATAGACTCTGGAAAGGTGTGACAGCTTGGTAAATACACCGAAAGTGTGAGTTAGACCCTTGGGTGCCTCCTGTCTGCGCACTGACCACATGCCCCCCTTGGCTTTCTAAGGGTGATGCTTGCAAGGGAGCTGAGAACCTTAGGATCCGGGGTTAGGTGACCTGTTTAACATAGTCACTGGTTTGAGGAAACGATAACAATTGTGTCTTCTCTGCATTCTCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGGGTTAGGTGACCTGTTT
59.6
ACAGTAGGGGAAATTTTCTCTGGA
59.4
172
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGGGGTTAGGTGACCTGTTT
59.6
CACAGTAGGGGAAATTTTCTCTGG
59.3
173
PCR template sequence:
CAAGGGAGCTGAGAACCTTAGGATCCGGGGTTAGGTGACCTGTTTAACATAGTCACTGGTTTGAGGAAACGATAACAATTGTGTCTTCTCTGCATTCTCAGTAAGCTGGGCCACAGGAAGAGTCTGATGTTATAAAGTATGTTTTTTTCTACACTGGTCCAATTAATTGTTCTTCCAGAGAAAATTTCCCCTACTGTGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
22
Interacting miRNAs (#binding sites)
mmu-miR-429-3p(2), mmu-miR-200c-3p(2), mmu-miR-23b-3p(1), mmu-miR-7b-5p(1), mmu-miR-34c-5p(1), mmu-miR-223-3p(1), mmu-miR-34a-5p(1), mmu-miR-29b-3p(1), mmu-miR-335-5p(1), mmu-miR-29c-3p(1), mmu-miR-7a-5p(1), mmu-miR-132-3p(1), mmu-miR-203-3p(1), mmu-miR-23a-3p(1), mmu-miR-433-5p(1), mmu-miR-676-3p(1), mmu-miR-541-5p(1), mmu-miR-34b-5p(1), mmu-miR-690(1), mmu-miR-188-3p(1), mmu-miR-350-3p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCTGCATTCTCAGTAAGCTGGGCCA
siRNA sets
NA
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
0.829765396
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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