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mmu_circHspa14_490
Basic information of circular RNA
PanCircBase ID:
mmu_circHspa14_490
mm39_Chr. Position ID:
chr2|3491973|3495637|-
Gene name:
Hspa14
Transcript:
ENSMUST00000027961.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
12,11,10
Exon/intron offsets:
0,584,3561
Genomic length:
3664
Exon/intron sizes in nt:
17,42,13,103
Flanking exon/introns:
chr2:3490805-3491973|chr2:3495637-3497600
Splice length:
490
Other database IDs:
circAtlas: mmu-Hspa14_0001
Human Ortholog IDs:
Mature spliced Sequence:
AGCAAGATTTGAGCTGCTCTGTTCTCCGCTTTTTAACAAATGTACAGAAGCAATCCGGGAGCTCTTGCGCCAGACTGGATTCACAGCAGATGATATCAACAAGGTTGTGCTGTGTGGTGGATCTTCCAGAATCCCAAAGCTGCAGCAGCTGATTAAAGATCTCTTCCCAGCCGTGGACCTCCTCAACTCTATCCCTCCAGATGAGGTCATCCCTATTGGTGCAGCCATAGAAGCCGGGATTCTTGTTGGGAAAGAGAGCACGTCAGGAGATGACTCTGTCATGATAGAGTGTTCAGCCAAGGATATTTTAGTTAAGGGAGTGGATGAGTCAGGTGCCGACAGATTCACAGTACTGTTTCCCTCTGGGACCCCGCTGCCAGCCCGAAGACAGCACACACTGCAGGCCCCCGGGAGGGTGTCTTCCGTTTGCCTTGAACTCTATGAGTCTGAGGGGAAGAACTCTGCTAAAGAGGAGGCCAAGTTTGCACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGTCTTCCGTTTGCCTTG
59.69
AAGAGCTCCCGGATTGCTTC
60.11
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGTCTTCCGTTTGCCTTG
59.69
TGCTGTGAATCCAGTCTGGC
60.32
164
PCR template sequence:
GCACACACTGCAGGCCCCCGGGAGGGTGTCTTCCGTTTGCCTTGAACTCTATGAGTCTGAGGGGAAGAACTCTGCTAAAGAGGAGGCCAAGTTTGCACAGAGCAAGATTTGAGCTGCTCTGTTCTCCGCTTTTTAACAAATGTACAGAAGCAATCCGGGAGCTCTTGCGCCAGACTGGATTCACAGCAGATGATATCAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-101a-3p(1), mmu-miR-101b-3p(1), mmu-miR-541-5p(1), mmu-miR-362-5p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAGTTTGCACAGAGCAAGATTTGAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHSPA14_490_ORF_1
0.8111
0.16135678
0.837964955
657
ORF sequence:
ATGAGTCAGGTGCCGACAGATTCACAGTACTGTTTCCCTCTGGGACCCCGCTGCCAGCCCGAAGACAGCACACACTGCAGGCCCCCGGGAGGGTGTCTTCCGTTTGCCTTGAACTCTATGAGTCTGAGGGGAAGAACTCTGCTAAAGAGGAGGCCAAGTTTGCACAGAGCAAGATTTGAGCTGCTCTGTTCTCCGCTTTTTAACAAATGTACAGAAGCAATCCGGGAGCTCTTGCGCCAGACTGGATTCACAGCAGATGATATCAACAAGGTTGTGCTGTGTGGTGGATCTTCCAGAATCCCAAAGCTGCAGCAGCTGATTAAAGATCTCTTCCCAGCCGTGGACCTCCTCAACTCTATCCCTCCAGATGAGGTCATCCCTATTGGTGCAGCCATAGAAGCCGGGATTCTTGTTGGGAAAGAGAGCACGTCAGGAGATGACTCTGTCATGATAGAGTGTTCAGCCAAGGATATTTTAGTTAAGGGAGTGGATGAGTCAGGTGCCGACAGATTCACAGTACTGTTTCCCTCTGGGACCCCGCTGCCAGCCCGAAGACAGCACACACTGCAGGCCCCCGGGAGGGTGTCTTCCGTTTGCCTTGAACTCTATGAGTCTGAGGGGAAGAACTCTGCTAAAGAGGAGGCCAAGTTTGCACAG
Peptide sequence:
MSQVPTDSQYCFPLGPRCQPEDSTHCRPPGGCLPFALNSMSLRGRTLLKRRPSLHRARFELLCSPLFNKCTEAIRELLRQTGFTADDINKVVLCGGSSRIPKLQQLIKDLFPAVDLLNSIPPDEVIPIGAAIEAGILVGKESTSGDDSVMIECSAKDILVKGVDESGADRFTVLFPSGTPLPARRQHTLQAPGRVSSVCLELYESEGKNSAKEEAKFAQ
IRESfinder result
IRESfinder score
0.65594161
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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