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mmu_circHelz_310
Basic information of circular RNA
PanCircBase ID:
mmu_circHelz_310
mm39_Chr. Position ID:
chr11|107483531|107491177|+
Gene name:
Helz
Transcript:
ENSMUST00000100305.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,7,8,9
Exon/intron offsets:
0,2433,6444,7570
Genomic length:
7646
Exon/intron sizes in nt:
125,57,52,76
Flanking exon/introns:
chr11:107468725-107483531|chr11:107491177-107493135
Splice length:
310
Other database IDs:
CIRCpedia: MMU_CIRCpedia_2117, circAtlas: mmu-Helz_0004
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
TGCTGGGGGAAGGACTGGCCAAGGGAGAGCGTGCCTTCCGGGCAGTGCTGTGCTGCATGCAGCTGAAAGGGAAGCTCCAGCTTGTGTCCTCCATCCTTGCCAAGTCACTGTCAGGGGAGTCTCTGAATGGGATGGTAACGAAAGATTTGACAAGACTAAAGACACTTCTCACAGAAACAGAGACAGCAACGAGTAATGTCCTGTCTGGATGTCACGTAGAAGACTTAGATGAAGGGTCCTGTAATGGTTGGCATTTCCGCCCACCGCCCAGGGGCATCACCAGCAGTGAGGAGTACACCTTGTGTAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTCCTGTAATGGTTGGCA
59.96
TGGAGCTTCCCTTTCAGCTG
59.96
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTCCTGTAATGGTTGGCA
59.96
AGCTTCCCTTTCAGCTGCAT
59.96
153
PCR template sequence:
GTCACGTAGAAGACTTAGATGAAGGGTCCTGTAATGGTTGGCATTTCCGCCCACCGCCCAGGGGCATCACCAGCAGTGAGGAGTACACCTTGTGTAAGAGTGCTGGGGGAAGGACTGGCCAAGGGAGAGCGTGCCTTCCGGGCAGTGCTGTGCTGCATGCAGCTGAAAGGGAAGCTCCAGCTTGTGTCCTCCATCCTTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-124-3p(1), mmu-miR-182-5p(1), mmu-miR-324-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTTGTGTAAGAGTGCTGGGGGAAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHELZ_310_ORF_1
0.7639
0.070599668
0.425301732
450
ORF sequence:
ATGCAGCTGAAAGGGAAGCTCCAGCTTGTGTCCTCCATCCTTGCCAAGTCACTGTCAGGGGAGTCTCTGAATGGGATGGTAACGAAAGATTTGACAAGACTAAAGACACTTCTCACAGAAACAGAGACAGCAACGAGTAATGTCCTGTCTGGATGTCACGTAGAAGACTTAGATGAAGGGTCCTGTAATGGTTGGCATTTCCGCCCACCGCCCAGGGGCATCACCAGCAGTGAGGAGTACACCTTGTGTAAGAGTGCTGGGGGAAGGACTGGCCAAGGGAGAGCGTGCCTTCCGGGCAGTGCTGTGCTGCATGCAGCTGAAAGGGAAGCTCCAGCTTGTGTCCTCCATCCTTGCCAAGTCACTGTCAGGGGAGTCTCTGAATGGGATGGTAACGAAAGATTTGACAAGACTAAAGACACTTCTCACAGAAACAGAGACAGCAACGAGTAA
Peptide sequence:
MQLKGKLQLVSSILAKSLSGESLNGMVTKDLTRLKTLLTETETATSNVLSGCHVEDLDEGSCNGWHFRPPPRGITSSEEYTLCKSAGGRTGQGRACLPGSAVLHAAEREAPACVLHPCQVTVRGVSEWDGNERFDKTKDTSHRNRDSNE
IRESfinder result
IRESfinder score
0.35992261
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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