top of page
mmu_circGtpbp1_530
Basic information of circular RNA
PanCircBase ID:
mmu_circGtpbp1_530
mm39_Chr. Position ID:
chr15|79591192|79592244|+
Gene name:
Gtpbp1
Transcript:
ENSMUST00000046463.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,4
Exon/intron offsets:
0,703
Genomic length:
1052
Exon/intron sizes in nt:
181,349
Flanking exon/introns:
chr15:79578468-79591192|chr15:79592244-79596296
Splice length:
530
Other database IDs:
CIRCpedia: MMU_CIRCpedia_217108, circAtlas: mmu-Gtpbp1_0001
circBase: hsa_circ_0116567, circAtlas: hsa-GTPBP1_0001, CIRCpedia: HSA_CIRCpedia_36704
Human Ortholog IDs:
Mature spliced Sequence:
ATGGGACTGAGTACGGGCTGAGTGAAGCTGACATGGAGGCCTCCTACGCCACCGTGAAGAGCATGGCGGAGCAGATAGAGGCTGACGTCATCCTCTTACGAGAACGTCAAGAAGCGGGCGGCCGTGTGCGTGATTACCTAGTCAGGAAACGAGTTGGAGACAATGACTTCCTGGAGGTCAGGGTGGCAGTGGTGGGCAACGTGGATGCTGGCAAAAGCACACTCCTGGGAGTCCTAACACACGGGGAGCTGGACAATGGCCGTGGCTTTGCCCGCCAAAAACTCTTTCGCCACAAACATGAGATTGAATCTGGTCGAACCAGCAGTGTGGGCAATGACATTCTGGGCTTTGACAGCGAAGGCAATGTAGTGAACAAACCCGACAGCCATGGTGGCAGCCTCGAATGGACAAAGATCTGTGAGAAGTCCTCTAAAGTGATCACCTTCATCGACTTGGCTGGCCACGAGAAGTACCTTAAGACCACTGTTTTTGGCATGACTGGCCACTTGCCTGACTTCTGCATGCTCATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTTCATCGACTTGGCTGG
60.04
CCTCTATCTGCTCCGCCATG
60.04
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTTCATCGACTTGGCTGG
60.04
GTCAGCCTCTATCTGCTCCG
59.69
176
PCR template sequence:
TAAAGTGATCACCTTCATCGACTTGGCTGGCCACGAGAAGTACCTTAAGACCACTGTTTTTGGCATGACTGGCCACTTGCCTGACTTCTGCATGCTCATGATGGGACTGAGTACGGGCTGAGTGAAGCTGACATGGAGGCCTCCTACGCCACCGTGAAGAGCATGGCGGAGCAGATAGAGGCTGACGTCATCCTCTTACG
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-221-3p(1), mmu-miR-18a-5p(1), mmu-miR-339-5p(1), mmu-miR-666-5p(1), mmu-miR-574-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGCATGCTCATGATGGGACTGAGTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGTPBP1_530_ORF_1
1.1529
0.435506002
0.916976598
519
ORF sequence:
ATGGAGGCCTCCTACGCCACCGTGAAGAGCATGGCGGAGCAGATAGAGGCTGACGTCATCCTCTTACGAGAACGTCAAGAAGCGGGCGGCCGTGTGCGTGATTACCTAGTCAGGAAACGAGTTGGAGACAATGACTTCCTGGAGGTCAGGGTGGCAGTGGTGGGCAACGTGGATGCTGGCAAAAGCACACTCCTGGGAGTCCTAACACACGGGGAGCTGGACAATGGCCGTGGCTTTGCCCGCCAAAAACTCTTTCGCCACAAACATGAGATTGAATCTGGTCGAACCAGCAGTGTGGGCAATGACATTCTGGGCTTTGACAGCGAAGGCAATGTAGTGAACAAACCCGACAGCCATGGTGGCAGCCTCGAATGGACAAAGATCTGTGAGAAGTCCTCTAAAGTGATCACCTTCATCGACTTGGCTGGCCACGAGAAGTACCTTAAGACCACTGTTTTTGGCATGACTGGCCACTTGCCTGACTTCTGCATGCTCATGATGGGACTGAGTACGGGCTGA
Peptide sequence:
MEASYATVKSMAEQIEADVILLRERQEAGGRVRDYLVRKRVGDNDFLEVRVAVVGNVDAGKSTLLGVLTHGELDNGRGFARQKLFRHKHEIESGRTSSVGNDILGFDSEGNVVNKPDSHGGSLEWTKICEKSSKVITFIDLAGHEKYLKTTVFGMTGHLPDFCMLMMGLSTG
IRESfinder result
IRESfinder score
0.323659045
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page