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mmu_circTerb1_508
Basic information of circular RNA
PanCircBase ID:
mmu_circTerb1_508
mm39_Chr. Position ID:
chr8|105195359|105199670|-
Gene name:
Terb1
Transcript:
ENSMUST00000064576.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
16,15,14
Exon/intron offsets:
0,383,3958
Genomic length:
4311
Exon/intron sizes in nt:
93,62,353
Flanking exon/introns:
chr8:105179406-105195359|chr8:105199670-105208804
Splice length:
508
Other database IDs:
circAtlas: mmu-Ccdc79_0014
circAtlas: hsa-TERB1_0004, CIRCpedia: HSA_CIRCpedia_18126
Human Ortholog IDs:
Mature spliced Sequence:
GAGAAGCAACAAAACAGGAGTGGACACTATAAGGATAATACCCCATCTATGAAAGTAAACATACAGACCAATTTGAAACGTCTCTGTGCAGATAGTACTGGAGGTACCAGAGCAGAAGATAAGGATATAAACCAGTCTAGAGAGCTTCGCAGCTATAAGCCCAGTGAAATCATGTCTAAAGCTTGTGCAAATGAAAACCAACTGACGACTCGGAAGAAGAACACAAATCCAGTTCATCCTTTCTGTAAGGAGAAAGGGCAGAGTAAGATTGTACATGAAACCACTCCAAGCTGTGCTCAAAACTTAGACAAGGAAAAAACCTTTGACCAAAAGGATTCTGTTTCTCAATCGAGTGACCAGGTCCTTAAACATCTGCCTCATACTGTCAAAAATAGAAAGCAGGTACCAGAAACAGATCCATTTACATTGTGTTTAGACATAATAGATAGAGAAGTTGGTATTCAAGCAACTGACAGCTGTTCCAGAATGTTAAAATATACGTGCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAACTGACAGCTGTTCCA
59.82
ACTATCTGCACAGAGACGTTTCA
59.74
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAACTGACAGCTGTTCCA
59.82
CAGTACTATCTGCACAGAGACGT
59.62
144
PCR template sequence:
GAAACAGATCCATTTACATTGTGTTTAGACATAATAGATAGAGAAGTTGGTATTCAAGCAACTGACAGCTGTTCCAGAATGTTAAAATATACGTGCTCAGGAGAAGCAACAAAACAGGAGTGGACACTATAAGGATAATACCCCATCTATGAAAGTAAACATACAGACCAATTTGAAACGTCTCTGTGCAGATAGTACTG
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-29b-2-5p(2), mmu-miR-140-5p(1), mmu-miR-223-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-297a-5p(1), mmu-miR-27a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TATACGTGCTCAGGAGAAGCAACAAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTERB1_508_ORF_1
0.8362
-0.009583819
0.450021197
492
ORF sequence:
ATGAAAGTAAACATACAGACCAATTTGAAACGTCTCTGTGCAGATAGTACTGGAGGTACCAGAGCAGAAGATAAGGATATAAACCAGTCTAGAGAGCTTCGCAGCTATAAGCCCAGTGAAATCATGTCTAAAGCTTGTGCAAATGAAAACCAACTGACGACTCGGAAGAAGAACACAAATCCAGTTCATCCTTTCTGTAAGGAGAAAGGGCAGAGTAAGATTGTACATGAAACCACTCCAAGCTGTGCTCAAAACTTAGACAAGGAAAAAACCTTTGACCAAAAGGATTCTGTTTCTCAATCGAGTGACCAGGTCCTTAAACATCTGCCTCATACTGTCAAAAATAGAAAGCAGGTACCAGAAACAGATCCATTTACATTGTGTTTAGACATAATAGATAGAGAAGTTGGTATTCAAGCAACTGACAGCTGTTCCAGAATGTTAAAATATACGTGCTCAGGAGAAGCAACAAAACAGGAGTGGACACTATAA
Peptide sequence:
MKVNIQTNLKRLCADSTGGTRAEDKDINQSRELRSYKPSEIMSKACANENQLTTRKKNTNPVHPFCKEKGQSKIVHETTPSCAQNLDKEKTFDQKDSVSQSSDQVLKHLPHTVKNRKQVPETDPFTLCLDIIDREVGIQATDSCSRMLKYTCSGEATKQEWTL
IRESfinder result
IRESfinder score
0.691841866
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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