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mmu_circArntl_866
Basic information of circular RNA
PanCircBase ID:
mmu_circArntl_866
mm39_Chr. Position ID:
chr7|112890667|112902698|+
Gene name:
Arntl
Transcript:
ENSMUST00000047321.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
10,11,12,13,14,15
Exon/intron offsets:
0,1717,3983,7726,10090,11880
Genomic length:
12031
Exon/intron sizes in nt:
93,11,81,50,24,71,07,100
Flanking exon/introns:
chr7:112886403-112890667|chr7:112902698-112903530
Splice length:
866
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCAGCAGATGGATTTTTGTTTGTCGTAGGATGTGACCGAGGGAAGATCCTCTTTGTCTCCGAGTCTGTCTTCAAGATCCTCAATTATAGCCAGAATGACCTTATTGGCCAGAGCTTGTTTGACTACCTGCATCCAAAAGATATTGCCAAAGTTAAGGAACAGCTATCTTCCTCGGACACTGCGCCCCGGGAGCGACTCATTGATGCCAAGACTGGACTTCCGGTTAAAACGGATATAACCCCTGGGCCCTCCCGGCTATGCTCTGGAGCCCGCCGCTCTTTCTTCTGTAGAATGAAGTGCAACAGGCCTTCAGTAAAGGTGGAAGATAAGGACTTCGCCTCTACCTGTTCAAAGAAAAAAGCAGATCGAAAAAGCTTCTGCACAATCCACAGCACAGGCTATTTGAAAAGCTGGCCACCCACGAAGATGGGGCTGGACGAAGACAATGAGCCAGACAACGAGGGCTGCAACCTCAGCTGCCTCGTTGCAATCGGGCGCCTGCACTCGCACATGGTTCCACAACCAGCGAACGGGGAAATACGGGTGAAATCTATGGAGTACGTTTCTCGACACGCAATAGATGGGAAATTTGTTTTTGTAGATCAGAGGGCGACAGCTATTTTGGCGTATCTACCACAGGAACTTCTAGGTACATCATGTTATGAGTATTTTCATCAAGACGACATAGGACACCTCGCAGAATGTCACAGGCAAGTTTTACAGACAAGAGAAAAGATCACAACTAATTGCTATAAGTTTAAGATCAAAGATGGTTCTTTTATCACGCTACGAAGTCGATGGTTCAGTTTCATGAACCCGTGGACCAAGGAAGTTGAATACATTGTCTCAACCAACACTGTTGTTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCACGCTACGAAGTCGATGG
59.9
ACAGACTCGGAGACAAAGAGG
59.11
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACGCTACGAAGTCGATGGT
60.18
ACAGACTCGGAGACAAAGAGG
59.11
152
PCR template sequence:
AAGATGGTTCTTTTATCACGCTACGAAGTCGATGGTTCAGTTTCATGAACCCGTGGACCAAGGAAGTTGAATACATTGTCTCAACCAACACTGTTGTTTTGCAGCAGATGGATTTTTGTTTGTCGTAGGATGTGACCGAGGGAAGATCCTCTTTGTCTCCGAGTCTGTCTTCAAGATCCTCAATTATAGCCAGAATGACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-let-7e-5p(1), mmu-miR-223-3p(1), mmu-miR-205-5p(1), mmu-let-7d-5p(1), mmu-miR-149-5p(1), mmu-miR-499-5p(1), mmu-miR-1187(1), mmu-miR-99a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACACTGTTGTTTTGCAGCAGATGGAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARNTL_866_ORF_1
0.6694
0.125330493
0.695316475
603
ORF sequence:
ATGAAGTGCAACAGGCCTTCAGTAAAGGTGGAAGATAAGGACTTCGCCTCTACCTGTTCAAAGAAAAAAGCAGATCGAAAAAGCTTCTGCACAATCCACAGCACAGGCTATTTGAAAAGCTGGCCACCCACGAAGATGGGGCTGGACGAAGACAATGAGCCAGACAACGAGGGCTGCAACCTCAGCTGCCTCGTTGCAATCGGGCGCCTGCACTCGCACATGGTTCCACAACCAGCGAACGGGGAAATACGGGTGAAATCTATGGAGTACGTTTCTCGACACGCAATAGATGGGAAATTTGTTTTTGTAGATCAGAGGGCGACAGCTATTTTGGCGTATCTACCACAGGAACTTCTAGGTACATCATGTTATGAGTATTTTCATCAAGACGACATAGGACACCTCGCAGAATGTCACAGGCAAGTTTTACAGACAAGAGAAAAGATCACAACTAATTGCTATAAGTTTAAGATCAAAGATGGTTCTTTTATCACGCTACGAAGTCGATGGTTCAGTTTCATGAACCCGTGGACCAAGGAAGTTGAATACATTGTCTCAACCAACACTGTTGTTTTGCAGCAGATGGATTTTTGTTTGTCGTAG
Peptide sequence:
MKCNRPSVKVEDKDFASTCSKKKADRKSFCTIHSTGYLKSWPPTKMGLDEDNEPDNEGCNLSCLVAIGRLHSHMVPQPANGEIRVKSMEYVSRHAIDGKFVFVDQRATAILAYLPQELLGTSCYEYFHQDDIGHLAECHRQVLQTREKITTNCYKFKIKDGSFITLRSRWFSFMNPWTKEVEYIVSTNTVVLQQMDFCLS
IRESfinder result
IRESfinder score
0.555527213
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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