top of page
mmu_circGtf2ird2_198
Basic information of circular RNA
PanCircBase ID:
mmu_circGtf2ird2_198
mm39_Chr. Position ID:
chr5|134232111|134237783|+
Gene name:
Gtf2ird2
Transcript:
ENSMUST00000123941.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
9,10,11
Exon/intron offsets:
0,3500,5609
Genomic length:
5672
Exon/intron sizes in nt:
78,57,63
Flanking exon/introns:
chr5:134231123-134232111|chr5:134237783-134240038
Splice length:
198
Other database IDs:
CIRCpedia: HSA_CIRCpedia_344507
Human Ortholog IDs:
Mature spliced Sequence:
GCACTTCACCAAGGGCAGCAGCCATGCTAATCAAGACGGAGTCGGAAGATCCTAATTACAACGTGTGTAACGTGCAAGGAAGCCAGCATTTTTCCGCCAGCAGTGACGTCACTGGAATGGAGCTACCATCTGAAGAGTCTACTCGGATGGTCGCTTTAGAGACCAATGAGGACCCCGAGACTGAGGTAAAAATGGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGACGTCACTGGAATGGAGC
60.04
TGGCTTCCTTGCACGTTACA
60.18
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACGTCACTGGAATGGAGC
60.04
GGCTTCCTTGCACGTTACAC
59.76
179
PCR template sequence:
GCAGTGACGTCACTGGAATGGAGCTACCATCTGAAGAGTCTACTCGGATGGTCGCTTTAGAGACCAATGAGGACCCCGAGACTGAGGTAAAAATGGAAGGCACTTCACCAAGGGCAGCAGCCATGCTAATCAAGACGGAGTCGGAAGATCCTAATTACAACGTGTGTAACGTGCAAGGAAGCCAGCATTTTTCCGCCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-93-5p(1), mmu-miR-32-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTAAAAATGGAAGGCACTTCACCAAG
siRNA sets
CTTGGTGAAGTGCCTTCCA, AAGTGCCTTCCATTTTTAC, TTGGTGAAGTGCCTTCCAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGTF2IRD2_198_ORF_1
1.0728
0.352874439
0.704718312
372
ORF sequence:
ATGCTAATCAAGACGGAGTCGGAAGATCCTAATTACAACGTGTGTAACGTGCAAGGAAGCCAGCATTTTTCCGCCAGCAGTGACGTCACTGGAATGGAGCTACCATCTGAAGAGTCTACTCGGATGGTCGCTTTAGAGACCAATGAGGACCCCGAGACTGAGGTAAAAATGGAAGGCACTTCACCAAGGGCAGCAGCCATGCTAATCAAGACGGAGTCGGAAGATCCTAATTACAACGTGTGTAACGTGCAAGGAAGCCAGCATTTTTCCGCCAGCAGTGACGTCACTGGAATGGAGCTACCATCTGAAGAGTCTACTCGGATGGTCGCTTTAGAGACCAATGAGGACCCCGAGACTGAGGTAAAAATGGAA
Peptide sequence:
MLIKTESEDPNYNVCNVQGSQHFSASSDVTGMELPSEESTRMVALETNEDPETEVKMEGTSPRAAAMLIKTESEDPNYNVCNVQGSQHFSASSDVTGMELPSEESTRMVALETNEDPETEVKME
IRESfinder result
IRESfinder score
0.385674872
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page