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mmu_circHuwe1_600
Basic information of circular RNA
PanCircBase ID:
mmu_circHuwe1_600
mm39_Chr. Position ID:
chrX|150623051|150635548|+
Gene name:
Huwe1
Transcript:
ENSMUST00000153687.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
5,6,7,8,9
Exon/intron offsets:
0,721,2947,10661,12419
Genomic length:
12497
Exon/intron sizes in nt:
99,207,153,63,78
Flanking exon/introns:
chrX:150619325-150623051|chrX:150635548-150636394
Splice length:
600
Other database IDs:
circAtlas: mmu-Huwe1_0052
Human Ortholog IDs:
Mature spliced Sequence:
CCTGCAGACTGCAGAGCCTTAATAGACAAACTCAAAGTTTGTAATGATGAGCAACTCCTCTTGGAACTGCAGCAAATCAAAACATGGAACATTGGCAAGTGTGAGTTATATCACTGGGTGGATCTGTTGGACCGCTTTGATGGAATTCTGGCAGATGCTGGACAAACAGTGGAGAATATGTCATGGATGCTTGTATGTGATAGGCCAGAAAAAGAACAGCTGAAAATGCTTCTATTGGCTGTATTGAACTTCACAGCCTTGCTCATTGAGTACAGCTTTTCTCGGCATCTGTACAGTTCCATAGAGCATTTGACAACTTTATTGGCTTCCTCTGATATGCAAGTGGTGCTGGCAGTCCTTAACCTTCTATATGTATTTAGCAAAAGATCAAACTATATCACACGTCTTGGATCTGACAAGAGGACTCCGCTACTGACACGGCTGCAGCATTTGGCAGAGAGCTGGGGTGGAAAGGAGAATGGCTTTGGACTTGCAGAATGTTGCAGAGACTTGCAAATGTTGAAATATCCACCCAGTGCAACCACACTACACTTTGAATTTTATGCAGATCCTGGAGCTGAGGTCAAAATTGAGAAGAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TATCCACCCAGTGCAACCAC
59.96
TGCTGCAGTTCCAAGAGGAG
59.96
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TATCCACCCAGTGCAACCAC
59.96
GCTGCAGTTCCAAGAGGAGT
59.96
148
PCR template sequence:
TTGCAGAGACTTGCAAATGTTGAAATATCCACCCAGTGCAACCACACTACACTTTGAATTTTATGCAGATCCTGGAGCTGAGGTCAAAATTGAGAAGAGGCCTGCAGACTGCAGAGCCTTAATAGACAAACTCAAAGTTTGTAATGATGAGCAACTCCTCTTGGAACTGCAGCAAATCAAAACATGGAACATTGGCAAGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-320-3p(1), mmu-miR-107-3p(1), mmu-miR-410-3p(1), mmu-miR-344d-3p(1), mmu-miR-3087-3p(1), mmu-miR-466b-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AATTGAGAAGAGGCCTGCAGACTGCA
siRNA sets
AGTCTGCAGGCCTCTTCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHUWE1_600_ORF_1
0.7338
0.048357151
0.975239731
1023
ORF sequence:
ATGTCATGGATGCTTGTATGTGATAGGCCAGAAAAAGAACAGCTGAAAATGCTTCTATTGGCTGTATTGAACTTCACAGCCTTGCTCATTGAGTACAGCTTTTCTCGGCATCTGTACAGTTCCATAGAGCATTTGACAACTTTATTGGCTTCCTCTGATATGCAAGTGGTGCTGGCAGTCCTTAACCTTCTATATGTATTTAGCAAAAGATCAAACTATATCACACGTCTTGGATCTGACAAGAGGACTCCGCTACTGACACGGCTGCAGCATTTGGCAGAGAGCTGGGGTGGAAAGGAGAATGGCTTTGGACTTGCAGAATGTTGCAGAGACTTGCAAATGTTGAAATATCCACCCAGTGCAACCACACTACACTTTGAATTTTATGCAGATCCTGGAGCTGAGGTCAAAATTGAGAAGAGGCCTGCAGACTGCAGAGCCTTAATAGACAAACTCAAAGTTTGTAATGATGAGCAACTCCTCTTGGAACTGCAGCAAATCAAAACATGGAACATTGGCAAGTGTGAGTTATATCACTGGGTGGATCTGTTGGACCGCTTTGATGGAATTCTGGCAGATGCTGGACAAACAGTGGAGAATATGTCATGGATGCTTGTATGTGATAGGCCAGAAAAAGAACAGCTGAAAATGCTTCTATTGGCTGTATTGAACTTCACAGCCTTGCTCATTGAGTACAGCTTTTCTCGGCATCTGTACAGTTCCATAGAGCATTTGACAACTTTATTGGCTTCCTCTGATATGCAAGTGGTGCTGGCAGTCCTTAACCTTCTATATGTATTTAGCAAAAGATCAAACTATATCACACGTCTTGGATCTGACAAGAGGACTCCGCTACTGACACGGCTGCAGCATTTGGCAGAGAGCTGGGGTGGAAAGGAGAATGGCTTTGGACTTGCAGAATGTTGCAGAGACTTGCAAATGTTGAAATATCCACCCAGTGCAACCACACTACACTTTGAATTTTATGCAGATCCTGGAGCTGAGGTCAAAATTGAGAAGAGG
Peptide sequence:
MSWMLVCDRPEKEQLKMLLLAVLNFTALLIEYSFSRHLYSSIEHLTTLLASSDMQVVLAVLNLLYVFSKRSNYITRLGSDKRTPLLTRLQHLAESWGGKENGFGLAECCRDLQMLKYPPSATTLHFEFYADPGAEVKIEKRPADCRALIDKLKVCNDEQLLLELQQIKTWNIGKCELYHWVDLLDRFDGILADAGQTVENMSWMLVCDRPEKEQLKMLLLAVLNFTALLIEYSFSRHLYSSIEHLTTLLASSDMQVVLAVLNLLYVFSKRSNYITRLGSDKRTPLLTRLQHLAESWGGKENGFGLAECCRDLQMLKYPPSATTLHFEFYADPGAEVKIEKR
IRESfinder result
IRESfinder score
0.61966347
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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