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mmu_circDcdc2a_411
Basic information of circular RNA
PanCircBase ID:
mmu_circDcdc2a_411
mm39_Chr. Position ID:
chr13|25286315|25294104|+
Gene name:
Dcdc2a
Transcript:
ENSMUST00000036932.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
3,4,5,6
Exon/intron offsets:
0,188,5258,7734
Genomic length:
7789
Exon/intron sizes in nt:
77,132,147,55
Flanking exon/introns:
chr13:25245272-25286315|chr13:25294104-25303229
Splice length:
411
Other database IDs:
CIRCpedia: MMU_CIRCpedia_14385, circAtlas: mmu-Dcdc2a_0002
circAtlas: hsa-DCDC2_0002, CIRCpedia: HSA_CIRCpedia_146558
Human Ortholog IDs:
Mature spliced Sequence:
GTGAAACCTGTCATTCACAGCAGGATCAACGTGTCCGCCCGCTTCAGGAAGTCGCTGCACGAGCCCTGCACCATTTTCTTGATTGCAAATGGAGACCTCATAAGCCCGGCTTCTCGCCTCCTCATCCCTAAAAAAGCTTTAAATCAGTGGGATCATGTACTACAAATGGTCACAGAAAAGATAACTCTCCGGAGTGGGGCTGTCCACAGGCTATATACGTTAGAAGGAAAGCTGGTTGAGAGTGGAGCAGAACTGGAGAATGGGCAGTTCTATGTGGCCGTCGGCAGAGATAAGTTTAAGAGACTACCGTACAGTGAGTTACTTTTTGACAAGTCAGCAATGAGAAGGCCTTACGGTCAGAAAGCGTCTTCACTACCTCCCATGGTTGGATCCAGGAAGTCTAAAGGGAGC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCCTTACGGTCAGAAAGC
60.04
AGAAAATGGTGCAGGGCTCG
60.96
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCCTTACGGTCAGAAAGC
60.04
TCAAGAAAATGGTGCAGGGC
59.03
148
PCR template sequence:
CAGTGAGTTACTTTTTGACAAGTCAGCAATGAGAAGGCCTTACGGTCAGAAAGCGTCTTCACTACCTCCCATGGTTGGATCCAGGAAGTCTAAAGGGAGCGTGAAACCTGTCATTCACAGCAGGATCAACGTGTCCGCCCGCTTCAGGAAGTCGCTGCACGAGCCCTGCACCATTTTCTTGATTGCAAATGGAGACCTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-let-7d-5p(1), mmu-miR-136-5p(1), mmu-miR-370-3p(1), mmu-miR-98-5p(1), mmu-miR-3087-3p(1), mmu-miR-1904(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCTAAAGGGAGCGTGAAACCTGTCA
siRNA sets
TGACAGGTTTCACGCTCCC, GTTTCACGCTCCCTTTAGA, GACAGGTTTCACGCTCCCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDCDC2A_411_ORF_1
0.7244
0.14522829
0.805287445
657
ORF sequence:
ATGGTCACAGAAAAGATAACTCTCCGGAGTGGGGCTGTCCACAGGCTATATACGTTAGAAGGAAAGCTGGTTGAGAGTGGAGCAGAACTGGAGAATGGGCAGTTCTATGTGGCCGTCGGCAGAGATAAGTTTAAGAGACTACCGTACAGTGAGTTACTTTTTGACAAGTCAGCAATGAGAAGGCCTTACGGTCAGAAAGCGTCTTCACTACCTCCCATGGTTGGATCCAGGAAGTCTAAAGGGAGCGTGAAACCTGTCATTCACAGCAGGATCAACGTGTCCGCCCGCTTCAGGAAGTCGCTGCACGAGCCCTGCACCATTTTCTTGATTGCAAATGGAGACCTCATAAGCCCGGCTTCTCGCCTCCTCATCCCTAAAAAAGCTTTAAATCAGTGGGATCATGTACTACAAATGGTCACAGAAAAGATAACTCTCCGGAGTGGGGCTGTCCACAGGCTATATACGTTAGAAGGAAAGCTGGTTGAGAGTGGAGCAGAACTGGAGAATGGGCAGTTCTATGTGGCCGTCGGCAGAGATAAGTTTAAGAGACTACCGTACAGTGAGTTACTTTTTGACAAGTCAGCAATGAGAAGGCCTTACGGTCAGAAAGCGTCTTCACTACCTCCCATGGTTGGATCCAGGAAGTCTAAAGGGAGC
Peptide sequence:
MVTEKITLRSGAVHRLYTLEGKLVESGAELENGQFYVAVGRDKFKRLPYSELLFDKSAMRRPYGQKASSLPPMVGSRKSKGSVKPVIHSRINVSARFRKSLHEPCTIFLIANGDLISPASRLLIPKKALNQWDHVLQMVTEKITLRSGAVHRLYTLEGKLVESGAELENGQFYVAVGRDKFKRLPYSELLFDKSAMRRPYGQKASSLPPMVGSRKSKGS
IRESfinder result
IRESfinder score
0.634225127
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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