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mmu_circWdr43_518
Basic information of circular RNA
PanCircBase ID:
mmu_circWdr43_518
mm39_Chr. Position ID:
chr17|71932347|71939136|+
Gene name:
Wdr43
Transcript:
ENSMUST00000234560.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
3,4,5,6
Exon/intron offsets:
0,1420,4808,6652
Genomic length:
6789
Exon/intron sizes in nt:
1,38,12,21,21,137
Flanking exon/introns:
chr17:71923480-71932347|chr17:71939136-71940618
Splice length:
518
Other database IDs:
circBase: mmu_circ_0006972, CIRCpedia: MMU_CIRCpedia_27866, circAtlas: mmu-Wdr43_0001
circBase: hsa_circ_0119714, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_40666
Human Ortholog IDs:
Mature spliced Sequence:
GAAAGTCATCAAAGGAAAAAAAGGAAATCGGAAGTTACAGGAACAAAGGACCAGGCTGACCTGTTGGCTCTTGGCACGGCAGTTGGTAGCATTTTATTGTATAGTACAGTAAGAGGAGAGTTGCACAGTAAATTAACAAGTGGTGGGCATGAAAACAGAGTGAATTGCATACAGTGGCATCAAGACAATGACTGCTTATATAGTTGTTCAGATGATAAGTATATTGTGGAGTGGAGTACACAGACATGCAAAGTAAAGTGCAAATGGAAAGGAGACAATAGCAGCGTCAGTTCCCTGTGTATCAGCCCAGATGGAAAGATGTTACTTTCAGCTGGTCGAACAATCAAACTATGGGTTTTGGAGACCAAAGAAGTCTACAGACACTTCACAGGACATGCGACACCTGTTTCGTCGCTTAGGTTCACGACCATCAGACCTAATGAGAGCCAGCCTTCTGATGGGATTACAGGCCTTTATTTCTTGTCTGGAGCCGTACACGACCGATTACTTAATGTCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCAGCCTTCTGATGGGATT
60.11
AAATGCTACCAACTGCCGTG
59.12
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGAGCCAGCCTTCTGATGG
60.18
AAATGCTACCAACTGCCGTG
59.12
171
PCR template sequence:
GGTTCACGACCATCAGACCTAATGAGAGCCAGCCTTCTGATGGGATTACAGGCCTTTATTTCTTGTCTGGAGCCGTACACGACCGATTACTTAATGTCTGGAAAGTCATCAAAGGAAAAAAAGGAAATCGGAAGTTACAGGAACAAAGGACCAGGCTGACCTGTTGGCTCTTGGCACGGCAGTTGGTAGCATTTTATTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-106a-5p(1), mmu-miR-375-3p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TACTTAATGTCTGGAAAGTCATCAAA
siRNA sets
TTTGATGACTTTCCAGACA, TTGATGACTTTCCAGACAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCWDR43_518_ORF_1
0.4719
-0.053595178
0.086476721
312
ORF sequence:
ATGTTACTTTCAGCTGGTCGAACAATCAAACTATGGGTTTTGGAGACCAAAGAAGTCTACAGACACTTCACAGGACATGCGACACCTGTTTCGTCGCTTAGGTTCACGACCATCAGACCTAATGAGAGCCAGCCTTCTGATGGGATTACAGGCCTTTATTTCTTGTCTGGAGCCGTACACGACCGATTACTTAATGTCTGGAAAGTCATCAAAGGAAAAAAAGGAAATCGGAAGTTACAGGAACAAAGGACCAGGCTGACCTGTTGGCTCTTGGCACGGCAGTTGGTAGCATTTTATTGTATAGTACAGTAA
Peptide sequence:
MLLSAGRTIKLWVLETKEVYRHFTGHATPVSSLRFTTIRPNESQPSDGITGLYFLSGAVHDRLLNVWKVIKGKKGNRKLQEQRTRLTCWLLARQLVAFYCIVQ
IRESfinder result
IRESfinder score
0.555230389
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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