top of page
mmu_circTxnrd2_220
Basic information of circular RNA
PanCircBase ID:
mmu_circTxnrd2_220
mm39_Chr. Position ID:
chr16|18256251|18257143|+
Gene name:
Txnrd2
Transcript:
ENSMUST00000205679.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,4
Exon/intron offsets:
0,817
Genomic length:
892
Exon/intron sizes in nt:
145,75
Flanking exon/introns:
chr16:18255367-18256251|chr16:18257143-18259542
Splice length:
220
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCACCAAGTGGGGCCTTGGTGGCACCTGTGTCAACGTGGGTTGCATACCCAAGAAGCTGATGCATCAGGCTGCACTGCTGGGGGGCATGATCAGAGATGCTCACCACTATGGCTGGGAGGTGGCCCAGCCTGTCCAACACAACTGGAAGACAATGGCAGAAGCCGTGCAAAACCATGTGAAATCCTTGAACTGGGGTCATCGCGTCCAACTGCAGGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGCCGTGCAAAACCATGT
59.97
GCATCTCTGATCATGCCCCC
60.61
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCGTGCAAAACCATGTGAA
60.25
GCATCTCTGATCATGCCCCC
60.61
159
PCR template sequence:
TGGCCCAGCCTGTCCAACACAACTGGAAGACAATGGCAGAAGCCGTGCAAAACCATGTGAAATCCTTGAACTGGGGTCATCGCGTCCAACTGCAGGACAGGCACCAAGTGGGGCCTTGGTGGCACCTGTGTCAACGTGGGTTGCATACCCAAGAAGCTGATGCATCAGGCTGCACTGCTGGGGGGCATGATCAGAGATGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
AACTGCAGGACAGGCACCAAGTGGGG
siRNA sets
ACTTGGTGCCTGTCCTGCA, CACTTGGTGCCTGTCCTGC, TTGGTGCCTGTCCTGCAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTXNRD2_220_ORF_1
0.8387
0.068588255
0.339867872
381
ORF sequence:
ATGCATCAGGCTGCACTGCTGGGGGGCATGATCAGAGATGCTCACCACTATGGCTGGGAGGTGGCCCAGCCTGTCCAACACAACTGGAAGACAATGGCAGAAGCCGTGCAAAACCATGTGAAATCCTTGAACTGGGGTCATCGCGTCCAACTGCAGGACAGGCACCAAGTGGGGCCTTGGTGGCACCTGTGTCAACGTGGGTTGCATACCCAAGAAGCTGATGCATCAGGCTGCACTGCTGGGGGGCATGATCAGAGATGCTCACCACTATGGCTGGGAGGTGGCCCAGCCTGTCCAACACAACTGGAAGACAATGGCAGAAGCCGTGCAAAACCATGTGAAATCCTTGAACTGGGGTCATCGCGTCCAACTGCAGGACAG
Peptide sequence:
MHQAALLGGMIRDAHHYGWEVAQPVQHNWKTMAEAVQNHVKSLNWGHRVQLQDRHQVGPWWHLCQRGLHTQEADASGCTAGGHDQRCSPLWLGGGPACPTQLEDNGRSRAKPCEILELGSSRPTAGQ
IRESfinder result
IRESfinder score
0.272282071
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page