top of page
mmu_circDtx2_321
Basic information of circular RNA
PanCircBase ID:
mmu_circDtx2_321
mm39_Chr. Position ID:
chr5|136057917|136059495|+
Gene name:
Dtx2
Transcript:
ENSMUST00000111142.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
8,9
Exon/intron offsets:
0,1416
Genomic length:
1578
Exon/intron sizes in nt:
1,59,162
Flanking exon/introns:
chr5:136057426-136057917|chr5:136059495-136060039
Splice length:
321
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GACTGCATTATCTGTATGGAGAAACTGGCTGTGGCTTCTGGGTACAGTGACATGACTGACAGCAAGGCCCTCGGGCCCATGGTCGTGGGCCGCCTCACCAAGTGCAGCCATGCCTTCCACCTGCTGTGCCTGCTGGCCATGTATTGCAACGGGAACAAGGACGGGAGTCTTCAGTGTCCGTCGTGCAAAACCATCTATGGGGAGAAGACTGGGACGCAGCCCTGGGGGAAGATGGAGGTGTTCAGGTTCCAAATGTCCCTCCCAGGCCATGAAGACTGTGGGACTATACTCATTGTTTACAACATCCCTCATGGCATCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGGGAAGATGGAGGTGTTC
59.74
CACTGTACCCAGAAGCCACA
59.6
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGGGAAGATGGAGGTGTTC
59.74
GGCCTTGCTGTCAGTCATGT
60.61
167
PCR template sequence:
CTGGGGGAAGATGGAGGTGTTCAGGTTCCAAATGTCCCTCCCAGGCCATGAAGACTGTGGGACTATACTCATTGTTTACAACATCCCTCATGGCATCCAGGACTGCATTATCTGTATGGAGAAACTGGCTGTGGCTTCTGGGTACAGTGACATGACTGACAGCAAGGCCCTCGGGCCCATGGTCGTGGGCCGCCTCACCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-223-3p(1), mmu-miR-30c-5p(1), mmu-miR-214-3p(1), mmu-miR-431-5p(1), mmu-miR-666-5p(1), mmu-miR-188-3p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCATGGCATCCAGGACTGCATTATCT
siRNA sets
GATAATGCAGTCCTGGATG, ATAATGCAGTCCTGGATGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDTX2_321_ORF_1
1.055
0.341439239
0.932417325
627
ORF sequence:
ATGGAGAAACTGGCTGTGGCTTCTGGGTACAGTGACATGACTGACAGCAAGGCCCTCGGGCCCATGGTCGTGGGCCGCCTCACCAAGTGCAGCCATGCCTTCCACCTGCTGTGCCTGCTGGCCATGTATTGCAACGGGAACAAGGACGGGAGTCTTCAGTGTCCGTCGTGCAAAACCATCTATGGGGAGAAGACTGGGACGCAGCCCTGGGGGAAGATGGAGGTGTTCAGGTTCCAAATGTCCCTCCCAGGCCATGAAGACTGTGGGACTATACTCATTGTTTACAACATCCCTCATGGCATCCAGGACTGCATTATCTGTATGGAGAAACTGGCTGTGGCTTCTGGGTACAGTGACATGACTGACAGCAAGGCCCTCGGGCCCATGGTCGTGGGCCGCCTCACCAAGTGCAGCCATGCCTTCCACCTGCTGTGCCTGCTGGCCATGTATTGCAACGGGAACAAGGACGGGAGTCTTCAGTGTCCGTCGTGCAAAACCATCTATGGGGAGAAGACTGGGACGCAGCCCTGGGGGAAGATGGAGGTGTTCAGGTTCCAAATGTCCCTCCCAGGCCATGAAGACTGTGGGACTATACTCATTGTTTACAACATCCCTCATGGCATCCAG
Peptide sequence:
MEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGTQPWGKMEVFRFQMSLPGHEDCGTILIVYNIPHGIQDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGTQPWGKMEVFRFQMSLPGHEDCGTILIVYNIPHGIQ
IRESfinder result
IRESfinder score
0.403457298
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page