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mmu_circHelz_766
Basic information of circular RNA
PanCircBase ID:
mmu_circHelz_766
mm39_Chr. Position ID:
chr11|107528605|107547074|+
Gene name:
Helz
Transcript:
ENSMUST00000100305.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
21,22,23,24
Exon/intron offsets:
0,8270,11332,18264
Genomic length:
18469
Exon/intron sizes in nt:
1,48,18,42,29,205
Flanking exon/introns:
chr11:107527137-107528605|chr11:107547074-107551920
Splice length:
766
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_167484
Human Ortholog IDs:
Mature spliced Sequence:
CTACACCTCTGAGCTTTTCTATGAGGGGAAGCTGATGGCCAGTGGGAAGCAGCCGGCGCACAAGGACTTCTATCCACTCACGTTCTTTACGGCACGGGGGGAGGACGTCCAAGAGAAGAACAGCACGGCATTCTACAACAATGCAGAGGTATTTGAAGTGGTGGAGCGTGTAGAAGAGCTAAGACGGAAGTGGCCAGTGGCATGGGGAAAGTTAGATGACGGCAGCATCGGTGTGGTGACGCCATACGCTGACCAGGTGTTTAGAATCCGAGCTGAGCTTCGGAAGAAGAGGCTCTCGGATGTGAATGTGGAAAGGGTGCTCAATGTCCAAGGAAAGCAGTTCAGAGTTCTGTTTCTTAGCACAGTGCGTACACGCCACACTTGCAAGCACAAGCAGACGCCAATTAAAAAGAAAGAGCAACTCCTGGAAGACTCCACCGAGGACTTAGATTATGGTTTTCTATCCAACTACAAACTTCTCAATACGGCCATCACCAGAGCACAGTCCTTGGTTGCTGTGGTGGGTGACCCTGTTGCTCTGTGCTCTATTGGAAGGTGTAGAAAGTTTTGGGAGCGGTTTATTGCCCTGTGTCATGAAAACCACAGCTTGCACGGGATCACGTTCGAACAGATCAAGGCACAGTTAGAGGCTTTAGAACTCAAGAAGACTTACGTGTTGAATCCACTGGCTCCTGAGTTTATCCCCCGGGCTTTACGACTGCAGCATTCAGGAAACAGTAGCAGACAGCAGCAGTCACCACCCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCCTGAGTTTATCCCCCG
59.89
ATAGAAGTCCTTGTGCGCCG
60.46
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACGTGTTGAATCCACTGGCT
59.89
ATAGAAGTCCTTGTGCGCCG
60.46
168
PCR template sequence:
GACTTACGTGTTGAATCCACTGGCTCCTGAGTTTATCCCCCGGGCTTTACGACTGCAGCATTCAGGAAACAGTAGCAGACAGCAGCAGTCACCACCCAAGCTACACCTCTGAGCTTTTCTATGAGGGGAAGCTGATGGCCAGTGGGAAGCAGCCGGCGCACAAGGACTTCTATCCACTCACGTTCTTTACGGCACGGGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-150-5p(1), mmu-miR-33-5p(1), mmu-miR-207(1), mmu-miR-669d-5p(1), mmu-miR-193b-3p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCACCACCCAAGCTACACCTCTGAG
siRNA sets
GAGGTGTAGCTTGGGTGGT, AGAGGTGTAGCTTGGGTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHELZ_766_ORF_1
1.0849
0.284260271
0.963377206
744
ORF sequence:
ATGGCCAGTGGGAAGCAGCCGGCGCACAAGGACTTCTATCCACTCACGTTCTTTACGGCACGGGGGGAGGACGTCCAAGAGAAGAACAGCACGGCATTCTACAACAATGCAGAGGTATTTGAAGTGGTGGAGCGTGTAGAAGAGCTAAGACGGAAGTGGCCAGTGGCATGGGGAAAGTTAGATGACGGCAGCATCGGTGTGGTGACGCCATACGCTGACCAGGTGTTTAGAATCCGAGCTGAGCTTCGGAAGAAGAGGCTCTCGGATGTGAATGTGGAAAGGGTGCTCAATGTCCAAGGAAAGCAGTTCAGAGTTCTGTTTCTTAGCACAGTGCGTACACGCCACACTTGCAAGCACAAGCAGACGCCAATTAAAAAGAAAGAGCAACTCCTGGAAGACTCCACCGAGGACTTAGATTATGGTTTTCTATCCAACTACAAACTTCTCAATACGGCCATCACCAGAGCACAGTCCTTGGTTGCTGTGGTGGGTGACCCTGTTGCTCTGTGCTCTATTGGAAGGTGTAGAAAGTTTTGGGAGCGGTTTATTGCCCTGTGTCATGAAAACCACAGCTTGCACGGGATCACGTTCGAACAGATCAAGGCACAGTTAGAGGCTTTAGAACTCAAGAAGACTTACGTGTTGAATCCACTGGCTCCTGAGTTTATCCCCCGGGCTTTACGACTGCAGCATTCAGGAAACAGTAGCAGACAGCAGCAGTCACCACCCAAGCTACACCTCTGA
Peptide sequence:
MASGKQPAHKDFYPLTFFTARGEDVQEKNSTAFYNNAEVFEVVERVEELRRKWPVAWGKLDDGSIGVVTPYADQVFRIRAELRKKRLSDVNVERVLNVQGKQFRVLFLSTVRTRHTCKHKQTPIKKKEQLLEDSTEDLDYGFLSNYKLLNTAITRAQSLVAVVGDPVALCSIGRCRKFWERFIALCHENHSLHGITFEQIKAQLEALELKKTYVLNPLAPEFIPRALRLQHSGNSSRQQQSPPKLHL
IRESfinder result
IRESfinder score
0.424240576
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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