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mmu_circWdr5_714
Basic information of circular RNA
PanCircBase ID:
mmu_circWdr5_714
mm39_Chr. Position ID:
chr2|27409754|27423867|+
Gene name:
Wdr5
Transcript:
ENSMUST00000113952.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
4,5,6,7,8,9,10,11,12,13
Exon/intron offsets:
0,584,830,1085,5363,8531,11896,13250,13594,14025
Genomic length:
14113
Exon/intron sizes in nt:
74,90,90,84,56,47,76,34,75,88
Flanking exon/introns:
chr2:27409469-27409754|chr2:27423867-27424768
Splice length:
714
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTGCTGATAAACTCATTAAAATTTGGGGAGCATATGATGGAAAGTTTGAGAAAACTATATCTGGTCACAAACTGGGAATATCTGATGTAGCGTGGTCATCAGATTCTAACCTCCTTGTGTCTGCCTCTGATGATAAAACTTTGAAGATTTGGGACGTGAGTTCCGGGAAGTGTCTGAAGACCCTGAAGGGCCACAGTAACTACGTCTTCTGCTGCAACTTCAACCCCCAGTCCAACCTCATCGTCTCAGGGTCTTTTGATGAAAGTGTGAGGATATGGGACGTGAAGACAGGGAAGTGCCTCAAGACTTTGCCTGCCCATTCGGACCCAGTCTCAGCCGTTCATTTCAACCGTGATGGATCATTGATTGTTTCCAGTAGCTATGATGGCCTCTGCCGAATCTGGGACACCGCCTCTGGCCAGTGTCTGAAGACACTCATTGATGATGACAATCCTCCAGTGTCCTTCGTGAAGTTCTCTCCAAATGGCAAATACATCCTGGCTGCAACTTTGGACAACACACTGAAGCTCTGGGACTACAGCAAGGGGAAGTGCCTGAAGACATACACTGGCCACAAGAATGAGAAGTACTGCATATTTGCCAACTTCTCCGTGACAGGCGGGAAGTGGATTGTGTCTGGTTCTGAAGATAACCTGGTGTATATCTGGAATCTGCAGACCAAGGAGATTGTGCAGAAGTTGCAGGGTCACACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCGGGAAGTGGATTGTGTCT
60.32
ACTTTCCATCATATGCTCCCCA
59.21
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCGGGAAGTGGATTGTGTCT
60.32
ACTTTCCATCATATGCTCCCCAA
59.79
141
PCR template sequence:
ACAGGCGGGAAGTGGATTGTGTCTGGTTCTGAAGATAACCTGGTGTATATCTGGAATCTGCAGACCAAGGAGATTGTGCAGAAGTTGCAGGGTCACACAGCTGCTGATAAACTCATTAAAATTTGGGGAGCATATGATGGAAAGTTTGAGAAAACTATATCTGGTCACAAACTGGGAATATCTGATGTAGCGTGGTCATC
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-miR-221-3p(1), mmu-miR-328-3p(1), mmu-miR-7a-5p(1), mmu-miR-222-3p(1), mmu-miR-709(1), mmu-miR-125b-5p(1), mmu-miR-125a-5p(1), mmu-miR-182-5p(1), mmu-miR-758-3p(1), mmu-miR-297a-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-3087-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGGGTCACACAGCTGCTGATAAACT
siRNA sets
GTTTATCAGCAGCTGTGTG, AGTTTATCAGCAGCTGTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.589910041
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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