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mmu_circGtf2ird2_282
Basic information of circular RNA
PanCircBase ID:
mmu_circGtf2ird2_282
mm39_Chr. Position ID:
chr5|134235611|134241977|+
Gene name:
Gtf2ird2
Transcript:
ENSMUST00000123941.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
10,11,12,13
Exon/intron offsets:
0,2109,4427,6282
Genomic length:
6366
Exon/intron sizes in nt:
57,63,78,84
Flanking exon/introns:
chr5:134232189-134235611|chr5:134241977-134242808
Splice length:
282
Other database IDs:
CIRCpedia: HSA_CIRCpedia_121607
Human Ortholog IDs:
Mature spliced Sequence:
GAAGCCAGCATTTTTCCGCCAGCAGTGACGTCACTGGAATGGAGCTACCATCTGAAGAGTCTACTCGGATGGTCGCTTTAGAGACCAATGAGGACCCCGAGACTGAGGTAAAAATGGAAGGAAATGCAAGTCCATCCAACCTTGTAAACTCTGCAGCAGGTGTTGAAGACCTTAGGATCATACAGGTGACAGTCGCAGATAATGAGAAGGAGAGGCTCTCAGGCCTCGAAAAAATTAAGCAACTGCGAGAACAAGTAAACGACCTCTTCAGCCGCAAGTTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAGGAGAGGCTCTCAGGC
60.69
AGCGACCATCCGAGTAGACT
60.11
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAGGAGAGGCTCTCAGGC
60.69
GCGACCATCCGAGTAGACTC
59.69
154
PCR template sequence:
CAGGTGACAGTCGCAGATAATGAGAAGGAGAGGCTCTCAGGCCTCGAAAAAATTAAGCAACTGCGAGAACAAGTAAACGACCTCTTCAGCCGCAAGTTTGGAAGCCAGCATTTTTCCGCCAGCAGTGACGTCACTGGAATGGAGCTACCATCTGAAGAGTCTACTCGGATGGTCGCTTTAGAGACCAATGAGGACCCCGA
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-335-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCCGCAAGTTTGGAAGCCAGCATTT
siRNA sets
AAATGCTGGCTTCCAAACT, TGCTGGCTTCCAAACTTGC, TGGCTTCCAAACTTGCGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGTF2IRD2_282_ORF_1
1.045
0.309117691
0.850616079
525
ORF sequence:
ATGGAGCTACCATCTGAAGAGTCTACTCGGATGGTCGCTTTAGAGACCAATGAGGACCCCGAGACTGAGGTAAAAATGGAAGGAAATGCAAGTCCATCCAACCTTGTAAACTCTGCAGCAGGTGTTGAAGACCTTAGGATCATACAGGTGACAGTCGCAGATAATGAGAAGGAGAGGCTCTCAGGCCTCGAAAAAATTAAGCAACTGCGAGAACAAGTAAACGACCTCTTCAGCCGCAAGTTTGGAAGCCAGCATTTTTCCGCCAGCAGTGACGTCACTGGAATGGAGCTACCATCTGAAGAGTCTACTCGGATGGTCGCTTTAGAGACCAATGAGGACCCCGAGACTGAGGTAAAAATGGAAGGAAATGCAAGTCCATCCAACCTTGTAAACTCTGCAGCAGGTGTTGAAGACCTTAGGATCATACAGGTGACAGTCGCAGATAATGAGAAGGAGAGGCTCTCAGGCCTCGAAAAAATTAAGCAACTGCGAGAACAAGTAAACGACCTCTTCAGCCGCAAGTTT
Peptide sequence:
MELPSEESTRMVALETNEDPETEVKMEGNASPSNLVNSAAGVEDLRIIQVTVADNEKERLSGLEKIKQLREQVNDLFSRKFGSQHFSASSDVTGMELPSEESTRMVALETNEDPETEVKMEGNASPSNLVNSAAGVEDLRIIQVTVADNEKERLSGLEKIKQLREQVNDLFSRKF
IRESfinder result
IRESfinder score
0.428882826
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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