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mmu_circDmxl1_691
Basic information of circular RNA
PanCircBase ID:
mmu_circDmxl1_691
mm39_Chr. Position ID:
chr18|50067650|50091516|+
Gene name:
Dmxl1
Transcript:
ENSMUST00000180611.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
35,36,37,38,39,40,41
Exon/intron offsets:
0,608,4965,16612,21233,22718,23813
Genomic length:
23866
Exon/intron sizes in nt:
122,142,61,128,93,92,53
Flanking exon/introns:
chr18:50065064-50067650|chr18:50091516-50094124
Splice length:
691
Other database IDs:
circAtlas: mmu-Dmxl1_0028
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GCAAATAGAAATTGCATAGCAATTGCCTCCAGCCATGATGTACAAGAACTGGATGTTTCTGCAATTCTGGCCACACAGATCTATACTTGGGTGGATGATGATACAGAGACAGAAACCAAAGGATCAGAAGACTTCTTGGTTATACATGCGCGTGATGATTTATCAGCTGTCCAGGGTTCAACTCCATACACACACAGCAACCCTGGCACTCCAATCAACATGCCGTGGCTTGGAAGTACACAGACGGGCAGAGGAGCATCAGTGATGCTTAAGAAAGCCATTAATAACGTTAGAAGAATGACATCACATCCAACTCTTCCTTACTATCTGACCGGAGCTCAAGATGGAAGTGTCAGAATGTTTGAATGGGGCCATTCTCAGCAAATAACCTGTTTTCGGTCTGGTGGCAATTCAAGAATTACAAGAATGAGATTTAACTATCAGGGAAATAAGTTTGGAATTGTTGATGCTGATGGATATTTAAGTTTGTACCAAACAAACTGGAAATGTTGCCCAGTTACTGGGAGCATGCCTAAGCCATATCTGGCTTGGCAGTGTCATAACAAAACAGCCAATGATTTTGTCTTCGTTAGTTCCTCCTCTCTGATAGCTACAGCTGGTCTTTCAAGTGACAATAGAAACATATGTCTATGGGACACACTTGTAGCGCCTGCCAATAGTTTAGTCCATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGCTGGTCTTTCAAGTGACA
60.09
TGTGTGGCCAGAATTGCAGA
60.18
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGCTGGTCTTTCAAGTGACA
60.09
TCTGTGTGGCCAGAATTGCA
60.18
158
PCR template sequence:
AGTTCCTCCTCTCTGATAGCTACAGCTGGTCTTTCAAGTGACAATAGAAACATATGTCTATGGGACACACTTGTAGCGCCTGCCAATAGTTTAGTCCATGGCAAATAGAAATTGCATAGCAATTGCCTCCAGCCATGATGTACAAGAACTGGATGTTTCTGCAATTCTGGCCACACAGATCTATACTTGGGTGGATGATG
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-9-5p(1), mmu-miR-135a-5p(1), mmu-miR-216a-5p(1), mmu-miR-425-5p(1), mmu-miR-324-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGTTTAGTCCATGGCAAATAGAAATT
siRNA sets
ATTTGCCATGGACTAAACT, TATTTGCCATGGACTAAAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDMXL1_691_ORF_1
0.8768
-0.052477681
0.757951109
693
ORF sequence:
ATGGCAAATAGAAATTGCATAGCAATTGCCTCCAGCCATGATGTACAAGAACTGGATGTTTCTGCAATTCTGGCCACACAGATCTATACTTGGGTGGATGATGATACAGAGACAGAAACCAAAGGATCAGAAGACTTCTTGGTTATACATGCGCGTGATGATTTATCAGCTGTCCAGGGTTCAACTCCATACACACACAGCAACCCTGGCACTCCAATCAACATGCCGTGGCTTGGAAGTACACAGACGGGCAGAGGAGCATCAGTGATGCTTAAGAAAGCCATTAATAACGTTAGAAGAATGACATCACATCCAACTCTTCCTTACTATCTGACCGGAGCTCAAGATGGAAGTGTCAGAATGTTTGAATGGGGCCATTCTCAGCAAATAACCTGTTTTCGGTCTGGTGGCAATTCAAGAATTACAAGAATGAGATTTAACTATCAGGGAAATAAGTTTGGAATTGTTGATGCTGATGGATATTTAAGTTTGTACCAAACAAACTGGAAATGTTGCCCAGTTACTGGGAGCATGCCTAAGCCATATCTGGCTTGGCAGTGTCATAACAAAACAGCCAATGATTTTGTCTTCGTTAGTTCCTCCTCTCTGATAGCTACAGCTGGTCTTTCAAGTGACAATAGAAACATATGTCTATGGGACACACTTGTAGCGCCTGCCAATAGTTTAGTCCAT
Peptide sequence:
MANRNCIAIASSHDVQELDVSAILATQIYTWVDDDTETETKGSEDFLVIHARDDLSAVQGSTPYTHSNPGTPINMPWLGSTQTGRGASVMLKKAINNVRRMTSHPTLPYYLTGAQDGSVRMFEWGHSQQITCFRSGGNSRITRMRFNYQGNKFGIVDADGYLSLYQTNWKCCPVTGSMPKPYLAWQCHNKTANDFVFVSSSSLIATAGLSSDNRNICLWDTLVAPANSLVH
IRESfinder result
IRESfinder score
0.611661148
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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