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mmu_circRint1_564
Basic information of circular RNA
PanCircBase ID:
mmu_circRint1_564
mm39_Chr. Position ID:
chr5|24014966|24016907|+
Gene name:
Rint1
Transcript:
ENSMUST00000030852.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
9,10,11
Exon/intron offsets:
0,928,1741
Genomic length:
1941
Exon/intron sizes in nt:
22,61,38,200
Flanking exon/introns:
chr5:24014892-24014966|chr5:24016907-24020649
Splice length:
564
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTTGAGTTTTCCCGTGGCCTTGTGATGCTCATTCTTGAGAAGCTGGCTTCTGATATCCCCTGCCTGCTCTACGATGACAGCCTCTTCTGTCACCTGGTGGATGAGGTGCTGCTGTTTGAAAGGGAGCTGCACACCGTTCACGGCTATCCCAGCACATTCGCCAGCTGCATGCACATCCTGTCGGAGGAGACCTGTTTCCAGAGATGGCTGACTGTGGAGAGAAAGTTTGCTCTTCAAAAAATGGACTCAATGCTTTCGTCAGAGGCTGCCTGGGTATCCCAGTATAAAGACATCTCTGATGTGGATGAAATGAAGGTTCCAGACTGTGCGGAAGTCTTTATGACCCTGCTTTTGGTTATAACTGACAGGTATAAAAATCTCCCCACAGCCTCCCGGAAACTGCAGTTCCTGGAGCTACAGAAGGACCTGGTAGATGATTTCAGGATCCGGTTAACGCAGGTGATGAAGGAGGAGACGAGAGCGGCCCTGGGCTTTCGGTACTGTGCGATTCTCAATGCCGTGAACTATATCTCAGCAGTGCTGGCAGACTGGGCTGACAATGTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGTGCGATTCTCAATGCCG
59.97
CCAGGTGACAGAAGAGGCTG
60.04
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGTGCGATTCTCAATGCCG
59.97
GTCATCGTAGAGCAGGCAGG
60.25
142
PCR template sequence:
GAAGGAGGAGACGAGAGCGGCCCTGGGCTTTCGGTACTGTGCGATTCTCAATGCCGTGAACTATATCTCAGCAGTGCTGGCAGACTGGGCTGACAATGTTCTTGAGTTTTCCCGTGGCCTTGTGATGCTCATTCTTGAGAAGCTGGCTTCTGATATCCCCTGCCTGCTCTACGATGACAGCCTCTTCTGTCACCTGGTGG
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-205-5p(2), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-223-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-202-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCTGACAATGTTCTTGAGTTTTCCC
siRNA sets
AAAACTCAAGAACATTGTC, AAACTCAAGAACATTGTCA, AACTCAAGAACATTGTCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRINT1_564_ORF_1
1.2276
0.342779822
0.998310673
1104
ORF sequence:
ATGCTCATTCTTGAGAAGCTGGCTTCTGATATCCCCTGCCTGCTCTACGATGACAGCCTCTTCTGTCACCTGGTGGATGAGGTGCTGCTGTTTGAAAGGGAGCTGCACACCGTTCACGGCTATCCCAGCACATTCGCCAGCTGCATGCACATCCTGTCGGAGGAGACCTGTTTCCAGAGATGGCTGACTGTGGAGAGAAAGTTTGCTCTTCAAAAAATGGACTCAATGCTTTCGTCAGAGGCTGCCTGGGTATCCCAGTATAAAGACATCTCTGATGTGGATGAAATGAAGGTTCCAGACTGTGCGGAAGTCTTTATGACCCTGCTTTTGGTTATAACTGACAGGTATAAAAATCTCCCCACAGCCTCCCGGAAACTGCAGTTCCTGGAGCTACAGAAGGACCTGGTAGATGATTTCAGGATCCGGTTAACGCAGGTGATGAAGGAGGAGACGAGAGCGGCCCTGGGCTTTCGGTACTGTGCGATTCTCAATGCCGTGAACTATATCTCAGCAGTGCTGGCAGACTGGGCTGACAATGTTCTTGAGTTTTCCCGTGGCCTTGTGATGCTCATTCTTGAGAAGCTGGCTTCTGATATCCCCTGCCTGCTCTACGATGACAGCCTCTTCTGTCACCTGGTGGATGAGGTGCTGCTGTTTGAAAGGGAGCTGCACACCGTTCACGGCTATCCCAGCACATTCGCCAGCTGCATGCACATCCTGTCGGAGGAGACCTGTTTCCAGAGATGGCTGACTGTGGAGAGAAAGTTTGCTCTTCAAAAAATGGACTCAATGCTTTCGTCAGAGGCTGCCTGGGTATCCCAGTATAAAGACATCTCTGATGTGGATGAAATGAAGGTTCCAGACTGTGCGGAAGTCTTTATGACCCTGCTTTTGGTTATAACTGACAGGTATAAAAATCTCCCCACAGCCTCCCGGAAACTGCAGTTCCTGGAGCTACAGAAGGACCTGGTAGATGATTTCAGGATCCGGTTAACGCAGGTGATGAAGGAGGAGACGAGAGCGGCCCTGGGCTTTCGGTACTGTGCGATTCTCAATGCCGTGAACTATATCTCAGCAGTGCTGGCAGACTGGGCTGACAATGTT
Peptide sequence:
MLILEKLASDIPCLLYDDSLFCHLVDEVLLFERELHTVHGYPSTFASCMHILSEETCFQRWLTVERKFALQKMDSMLSSEAAWVSQYKDISDVDEMKVPDCAEVFMTLLLVITDRYKNLPTASRKLQFLELQKDLVDDFRIRLTQVMKEETRAALGFRYCAILNAVNYISAVLADWADNVLEFSRGLVMLILEKLASDIPCLLYDDSLFCHLVDEVLLFERELHTVHGYPSTFASCMHILSEETCFQRWLTVERKFALQKMDSMLSSEAAWVSQYKDISDVDEMKVPDCAEVFMTLLLVITDRYKNLPTASRKLQFLELQKDLVDDFRIRLTQVMKEETRAALGFRYCAILNAVNYISAVLADWADNV
IRESfinder result
IRESfinder score
0.439478476
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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