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mmu_ciArl5b_1140
Basic information of circular RNA
PanCircBase ID:
mmu_ciArl5b_1140
mm39_Chr. Position ID:
chr2|15079924|15081064|+
Gene name:
Arl5b
Transcript:
ENSMUST00000017562.13
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
1140
Exon/intron sizes in nt:
1140
Flanking exon/introns:
chr2:15079924-15081066
Splice length:
1140
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGTGCTGCCAGGGCTCTCCCACAACCTCTCACAGCTATAGGCCGACACCGTCTTTCCCAGCCACCATCTCTTGTTTCTCTCAAGCATGGTGGTTGTTATATTGCTTTTCTGGCTTAACATTTTGAAATACTTCTAGTGAATAATTTACCTCCAAGTTCTTCAAATTTTTAACATACATGTAATATTTTTGAAGGCATAAGAAGCTGTGGAATTAAATGTTTAGATTTCAGGTTTTTGTTCATCATATCCTTTCTAAGCAAAAGCTGCAATGTCACCTGAATTCATGATAGAGATTTAAAGAAATTACACACTTTCTGAAAGGACTTAACTAGTCTTCTCCAACAATCTGTCTCCTGTAATATCAAGAGTCCTTTCCGGAGCACATTTCTAGAGGAACGTTTGACAGGGCCAATGTAGTGTGTTCTTGCTTTTCTATGACAAGGGGAAGCCAGTGTGTAATGTGTGATACCTCGTTCATGACAGGATCCTCATAGCAGCCTAACAATTGGTTTTCTCTTTCTCAACTATGTGGTAATGTAGTAGCTAAGTGTGGAGCCTGTACCCTTCTATTCCTTAGAGACGGTGAATAAAGAGAAGTTTCTGCTATTTTAATAGTGGTTTTAGCTCCCTTTTAGAGGGTGCAGTGGGTGTGGTATTTGCAGTCCTGATGAGAAAACTAGAGAGTTTGAATCTTTAAGATGAGACTAAGCAGTTTCCCACTTTGTTTAAAGGACACTTGCATTAGAATTTCACTTAGGATTTTATCAGAGAGCTGTCCCTGATGGAGGCTCAGGGTCGGCTCCACTGGGAGACTGCTTGCCAGGCACGACAGAGCCCTGGCTTCCATCCCTGCTGCTCCACACACTGAGGGTGGTGGCATATTTCTGTAGTCTCAGCACTTGAAGATGAGGTCAGGGCCACAGGGTAAGAAGCTTACCTTGATGTTGTCTGCATAGAGGATTTGAGGCTAGCTTGTACTGCTTCACACCCTGTTCCTTGTGAGGATTAAAAGGTTGTCAACCAGCGTATGTAAATCGCATCCGAGTGTAACGCTAACCTTTAAATAAGACTTACTAATTGTGGCTTCGATCTTTCCACATAAAGTTTCTAATTTCTGAATGCTTCTGTCTTTTGTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCGAGTGTAACGCTAACCT
58.46
AACAAGAGATGGTGGCTGGG
59.96
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCGAGTGTAACGCTAACCT
58.46
CAAGAGATGGTGGCTGGGAA
59.67
174
PCR template sequence:
CATCCGAGTGTAACGCTAACCTTTAAATAAGACTTACTAATTGTGGCTTCGATCTTTCCACATAAAGTTTCTAATTTCTGAATGCTTCTGTCTTTTGTTTGTAGGTGCTGCCAGGGCTCTCCCACAACCTCTCACAGCTATAGGCCGACACCGTCTTTCCCAGCCACCATCTCTTGTTTCTCTCAAGCATGGTGGTTGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-328-3p(2), mmu-miR-106b-5p(1), mmu-miR-7a-5p(1), mmu-miR-125b-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-214-3p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1), mmu-miR-344d-3p(1), mmu-miR-532-5p(1), mmu-miR-452-3p(1), mmu-miR-323-3p(1), mmu-miR-202-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGTCTTTTGTTTGTAGGTGCTGCCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIARL5B_1140_ORF_1
1.2137
-0.45628363
0.020958304
147
ORF sequence:
ATGCTTCTGTCTTTTGTTTGTAGGTGCTGCCAGGGCTCTCCCACAACCTCTCACAGCTATAGGCCGACACCGTCTTTCCCAGCCACCATCTCTTGTTTCTCTCAAGCATGGTGGTTGTTATATTGCTTTTCTGGCTTAACATTTTGA
Peptide sequence:
MLLSFVCRCCQGSPTTSHSYRPTPSFPATISCFSQAWWLLYCFSGLTF
IRESfinder result
IRESfinder score
0.841493504
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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