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mmu_circTrp53bp1_658
Basic information of circular RNA
PanCircBase ID:
mmu_circTrp53bp1_658
mm39_Chr. Position ID:
chr2|121041750|121046652|-
Gene name:
Trp53bp1
Transcript:
ENSMUST00000110647.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
18,17
Exon/intron offsets:
0,4397
Genomic length:
4902
Exon/intron sizes in nt:
1,53,505
Flanking exon/introns:
chr2:121039833-121041750|chr2:121046652-121051638
Splice length:
658
Other database IDs:
CIRCpedia: MMU_CIRCpedia_5361, circAtlas: mmu-Trp53bp1_0032
Human Ortholog IDs:
Mature spliced Sequence:
GGCGAATTTGCTCCATTTTCCAAGTGCTCAAGAAGAAGACAAAGAAAGACCAGATGTTACCCCAAAACTCAGGCAGAGTGAACAGCCTGTGAAGCCTGTTGGGCCTGTCATGGACGATGCTGCTCCTGAGGACTCAGCTTCTCCTGTTTCGCAGCAGAGGGCCTCACAGGAGCAGAGGGCCTCACAGGAGCCCTTCAGTCCTGCAGAGGACGTGATGGAAACAGACCTGCTGGAAGGACTGGCTGCTAACCAGGACAGACCTAGTAAGATGTTGATGGACAGGCCCACCCAGAGTAACATCGGGATCCAGACCGTGGACCATTCCCTGTGCGCCCCAGAAACTGTCTCGGCAGCAACTCAGACTGTGAAGAGTGTGTGTGAGCAGGGGACCAGTACAGCGGAGCAGAACTCTGGGAAACAAGATGCCACTGTGCAGACTGAGAGGGGGAGTGGAGAGAAACCTGCCAGTGCTCCCGTGGACGACACAGAGTCCCTCCACAGCCAGGGGGAAGAGGAATTTGAAATGCCCCAGCCTCCGCATGGCCATGTCTTGCATCGCCACATGAGAACCATTCGAGAAGTCCGTACACTCGTCACCCGCGTCATCACAGATGTTTATTATGTGGATGGGACAGAAGTGGAAAGGAAAGTAACGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGTCCGTACACTCGTCACC
59.4
CTCTGCCTGAGTTTTGGGGT
59.89
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGTCCGTACACTCGTCACC
59.4
TCACAGGCTGTTCACTCTGC
60.25
172
PCR template sequence:
CCACATGAGAACCATTCGAGAAGTCCGTACACTCGTCACCCGCGTCATCACAGATGTTTATTATGTGGATGGGACAGAAGTGGAAAGGAAAGTAACGGAGGGCGAATTTGCTCCATTTTCCAAGTGCTCAAGAAGAAGACAAAGAAAGACCAGATGTTACCCCAAAACTCAGGCAGAGTGAACAGCCTGTGAAGCCTGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-1904(2), mmu-miR-16-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-103-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-541-5p(1), mmu-miR-107-3p(1), mmu-miR-342-3p(1), mmu-miR-1199-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAAGTAACGGAGGGCGAATTTGCTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRP53BP1_658_ORF_1
1.1987
0.280473189
0.933906962
630
ORF sequence:
ATGGACGATGCTGCTCCTGAGGACTCAGCTTCTCCTGTTTCGCAGCAGAGGGCCTCACAGGAGCAGAGGGCCTCACAGGAGCCCTTCAGTCCTGCAGAGGACGTGATGGAAACAGACCTGCTGGAAGGACTGGCTGCTAACCAGGACAGACCTAGTAAGATGTTGATGGACAGGCCCACCCAGAGTAACATCGGGATCCAGACCGTGGACCATTCCCTGTGCGCCCCAGAAACTGTCTCGGCAGCAACTCAGACTGTGAAGAGTGTGTGTGAGCAGGGGACCAGTACAGCGGAGCAGAACTCTGGGAAACAAGATGCCACTGTGCAGACTGAGAGGGGGAGTGGAGAGAAACCTGCCAGTGCTCCCGTGGACGACACAGAGTCCCTCCACAGCCAGGGGGAAGAGGAATTTGAAATGCCCCAGCCTCCGCATGGCCATGTCTTGCATCGCCACATGAGAACCATTCGAGAAGTCCGTACACTCGTCACCCGCGTCATCACAGATGTTTATTATGTGGATGGGACAGAAGTGGAAAGGAAAGTAACGGAGGGCGAATTTGCTCCATTTTCCAAGTGCTCAAGAAGAAGACAAAGAAAGACCAGATGTTACCCCAAAACTCAGGCAGAGTGA
Peptide sequence:
MDDAAPEDSASPVSQQRASQEQRASQEPFSPAEDVMETDLLEGLAANQDRPSKMLMDRPTQSNIGIQTVDHSLCAPETVSAATQTVKSVCEQGTSTAEQNSGKQDATVQTERGSGEKPASAPVDDTESLHSQGEEEFEMPQPPHGHVLHRHMRTIREVRTLVTRVITDVYYVDGTEVERKVTEGEFAPFSKCSRRRQRKTRCYPKTQAE
IRESfinder result
IRESfinder score
0.371276359
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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