top of page
mmu_circTnpo3_361
Basic information of circular RNA
PanCircBase ID:
mmu_circTnpo3_361
mm39_Chr. Position ID:
chr6|29562856|29565854|-
Gene name:
Tnpo3
Transcript:
ENSMUST00000115251.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
14,13,12
Exon/intron offsets:
0,2313,2806
Genomic length:
2998
Exon/intron sizes in nt:
77,92,192
Flanking exon/introns:
chr6:29561419-29562856|chr6:29565854-29568852
Splice length:
361
Other database IDs:
circBase: hsa_circ_0133262, circAtlas: hsa-TNPO3_0017, CIRCpedia: HSA_CIRCpedia_98611
Human Ortholog IDs:
Mature spliced Sequence:
ACCCTGTATTGGGCTATTTGATGAAAGGCCTGTGTGAAAAGCCTCTGGCTTCTGCTGCAGCCAAAGCCATTCATAACATTTGTTCCGTTTGTCGCGATCATATGGCTCAGCACTTTAATGGACTCCTAGAAATTGCCCACTCCCTTGATTCTTTCATGTTGTCTCCCGAAGCTGCTGTGGGTTTGCTAAAAGGAACAGCTCTTGTCCTAGCAAGACTACCTTTGGATAAGATTACAGAATGTCTAAGTGAGTTATGTTCTGTTCAGGTTATGGCATTGAAAAAGCTGTTGTCTCAGGAGCCCAGCAATGGCATTTCTTCAGATCCCACTGTCTTCTTAGATCGCCTGGCAGTAATATTTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCTGTTGTCTCAGGAGCC
59.96
GATCGCGACAAACGGAACAA
59.49
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGTTGTCTCAGGAGCCCAG
60.04
GATCGCGACAAACGGAACAA
59.49
176
PCR template sequence:
TTCAGGTTATGGCATTGAAAAAGCTGTTGTCTCAGGAGCCCAGCAATGGCATTTCTTCAGATCCCACTGTCTTCTTAGATCGCCTGGCAGTAATATTTAGACCCTGTATTGGGCTATTTGATGAAAGGCCTGTGTGAAAAGCCTCTGGCTTCTGCTGCAGCCAAAGCCATTCATAACATTTGTTCCGTTTGTCGCGATCA
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-93-5p(1), mmu-miR-26a-5p(1), mmu-miR-106b-5p(1), mmu-miR-196a-5p(1), mmu-miR-377-3p(1), mmu-miR-3087-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGTAATATTTAGACCCTGTATTGGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTNPO3_361_ORF_1
0.853
-0.033702949
0.252797906
378
ORF sequence:
ATGAAAGGCCTGTGTGAAAAGCCTCTGGCTTCTGCTGCAGCCAAAGCCATTCATAACATTTGTTCCGTTTGTCGCGATCATATGGCTCAGCACTTTAATGGACTCCTAGAAATTGCCCACTCCCTTGATTCTTTCATGTTGTCTCCCGAAGCTGCTGTGGGTTTGCTAAAAGGAACAGCTCTTGTCCTAGCAAGACTACCTTTGGATAAGATTACAGAATGTCTAAGTGAGTTATGTTCTGTTCAGGTTATGGCATTGAAAAAGCTGTTGTCTCAGGAGCCCAGCAATGGCATTTCTTCAGATCCCACTGTCTTCTTAGATCGCCTGGCAGTAATATTTAGACCCTGTATTGGGCTATTTGATGAAAGGCCTGTGTGA
Peptide sequence:
MKGLCEKPLASAAAKAIHNICSVCRDHMAQHFNGLLEIAHSLDSFMLSPEAAVGLLKGTALVLARLPLDKITECLSELCSVQVMALKKLLSQEPSNGISSDPTVFLDRLAVIFRPCIGLFDERPV
IRESfinder result
IRESfinder score
0.636840683
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page