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mmu_circCapn11_415
Basic information of circular RNA
PanCircBase ID:
mmu_circCapn11_415
mm39_Chr. Position ID:
chr17|45949620|45950410|-
Gene name:
Capn11
Transcript:
ENSMUST00000120717.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
11,10,9
Exon/intron offsets:
0,374,715
Genomic length:
790
Exon/intron sizes in nt:
176,164,75
Flanking exon/introns:
chr17:45945205-45949620|chr17:45950410-45950548
Splice length:
415
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AGCCACAGAGTGGGAAGAGGTGAGCCCAGATGTTCGGGTACAGCTGCTACACAAGAAGGATGATGGCGATTTCTGGATGTCCTATGAAGACTTCATGAGCAACTTTACACTGCTGGAGATCTGCAACCTCACCCCGGATGCCCTCAACACCTGGGATTACAAGAGCCGCTGGCACTCCACCTTCTATGAGGGCAGCTGGCGAAGGGGAAGCACTGCAGGGGGCTGCAGAAACCACCCGGAGACGTTCTGGAGCAACCCCCAGTTCAAGATCTCTCTCCCGGAAGTGGATGACCCAGAGGATGACTCTGAGAAAAACGAAATGGTTTGCACCTGTCTGGTGGCACTGATGCAGAAGAACTGGAGACATGCTCGAGAGGGACCCCAGCTCCTCACCATAGGCTTTGTCATCTTCTCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGTCTGGTGGCACTGATG
60.68
TTGTGTAGCAGCTGTACCCG
60.04
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATGGTTTGCACCTGTCTGG
58.67
TTGTGTAGCAGCTGTACCCG
60.04
151
PCR template sequence:
CGAAATGGTTTGCACCTGTCTGGTGGCACTGATGCAGAAGAACTGGAGACATGCTCGAGAGGGACCCCAGCTCCTCACCATAGGCTTTGTCATCTTCTCGAGCCACAGAGTGGGAAGAGGTGAGCCCAGATGTTCGGGTACAGCTGCTACACAAGAAGGATGATGGCGATTTCTGGATGTCCTATGAAGACTTCATGAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-19b-3p(1), mmu-miR-326-3p(1), mmu-miR-22-3p(1), mmu-miR-382-5p(1), mmu-miR-34b-5p(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTCATCTTCTCGAGCCACAGAGTGG
siRNA sets
TGTGGCTCGAGAAGATGAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCAPN11_415_ORF_1
0.8114
0.278585257
0.571102733
402
ORF sequence:
ATGTCCTATGAAGACTTCATGAGCAACTTTACACTGCTGGAGATCTGCAACCTCACCCCGGATGCCCTCAACACCTGGGATTACAAGAGCCGCTGGCACTCCACCTTCTATGAGGGCAGCTGGCGAAGGGGAAGCACTGCAGGGGGCTGCAGAAACCACCCGGAGACGTTCTGGAGCAACCCCCAGTTCAAGATCTCTCTCCCGGAAGTGGATGACCCAGAGGATGACTCTGAGAAAAACGAAATGGTTTGCACCTGTCTGGTGGCACTGATGCAGAAGAACTGGAGACATGCTCGAGAGGGACCCCAGCTCCTCACCATAGGCTTTGTCATCTTCTCGAGCCACAGAGTGGGAAGAGGTGAGCCCAGATGTTCGGGTACAGCTGCTACACAAGAAGGATGA
Peptide sequence:
MSYEDFMSNFTLLEICNLTPDALNTWDYKSRWHSTFYEGSWRRGSTAGGCRNHPETFWSNPQFKISLPEVDDPEDDSEKNEMVCTCLVALMQKNWRHAREGPQLLTIGFVIFSSHRVGRGEPRCSGTAATQEG
IRESfinder result
IRESfinder score
0.241658839
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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