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mmu_circHells_732
Basic information of circular RNA
PanCircBase ID:
mmu_circHells_732
mm39_Chr. Position ID:
chr19|38923857|38934017|+
Gene name:
Hells
Transcript:
ENSMUST00000025965.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
3,4,5,6,7,8,9
Exon/intron offsets:
0,2992,5057,5183,7040,8300,9977
Genomic length:
10160
Exon/intron sizes in nt:
123,57,37,65,39,228,183
Flanking exon/introns:
chr19:38919956-38923857|chr19:38934017-38935168
Splice length:
732
Other database IDs:
circAtlas: mmu-Hells_0010
circAtlas: hsa-HELLS_0020, CIRCpedia: HSA_CIRCpedia_129209
Human Ortholog IDs:
Mature spliced Sequence:
GCTCAAAAGTCTTGGGACAGAGAGTCCACTGAAATTCGGTACCGCAGACTTCAGCATTTGCTTGAAAAAAGCAATATCTACTCAAAATTTTTGTTGACTAAAATGGAACAACAGCAATTGGAGGAACAGAAGAAGAAAGAGAAGTTGGAGAAAAAAAAACGGTCATTAAAACTTACAGAGGGTAAAAGTTTAGTTGATGGGAATGGAGAGAAACCAGTCATGAAAAAGAAAAGAGGAAGAGAAGATGAATCTTATAATATTTCAGAGGTCATGTCAAAAGAGGAAATTTTGTCCGTAGCTAAAAAACATAAGGATAATGAGGATGAAAGCTCTTCCACTACGAGTCTTTGTGTAGAAGATATTCAGAAAAATAAGGATTCAAATAGTATGATTAAAGATAGATTGTCTCAAACTGTTAGGCAGAATTCTAAATTCTTTTTTGACCCAGTTCGGAAATGTAACGGACAGCCTGTACCCTTTCAACAACCAAAGCATTTCACAGGAGGAGTAATGAGGTGGTACCAAGTAGAAGGCATGGAATGGCTTAGGATGCTTTGGGAAAATGGAATTAATGGCATTTTAGCAGATGAAATGGGTTTGGGAAAGACTGTTCAGTGCATTGCTACAATTGCATTGATGATTCAGAGGGGAGTACCTGGACCTTTTCTTGTTTGTGGCCCTTTGTCTACACTTCCTAACTGGATGGCTGAATTTAAAAGATTTACTCCAGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGGGAGTACCTGGACCTT
59.96
ATGCTGAAGTCTGCGGTACC
60.11
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGGGAGTACCTGGACCTT
59.96
CTGAAGTCTGCGGTACCGAA
59.76
142
PCR template sequence:
ATTGATGATTCAGAGGGGAGTACCTGGACCTTTTCTTGTTTGTGGCCCTTTGTCTACACTTCCTAACTGGATGGCTGAATTTAAAAGATTTACTCCAGAAGCTCAAAAGTCTTGGGACAGAGAGTCCACTGAAATTCGGTACCGCAGACTTCAGCATTTGCTTGAAAAAAGCAATATCTACTCAAAATTTTTGTTGACTA
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-203-3p(1), mmu-miR-136-5p(1), mmu-miR-335-3p(1), mmu-miR-532-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTTACTCCAGAAGCTCAAAAGTCTT
siRNA sets
AAGACTTTTGAGCTTCTGG, TTTTGAGCTTCTGGAGTAA, TTTGAGCTTCTGGAGTAAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHELLS_732_ORF_1
0.8829
-0.024595157
0.997745637
1362
ORF sequence:
ATGGAACAACAGCAATTGGAGGAACAGAAGAAGAAAGAGAAGTTGGAGAAAAAAAAACGGTCATTAAAACTTACAGAGGGTAAAAGTTTAGTTGATGGGAATGGAGAGAAACCAGTCATGAAAAAGAAAAGAGGAAGAGAAGATGAATCTTATAATATTTCAGAGGTCATGTCAAAAGAGGAAATTTTGTCCGTAGCTAAAAAACATAAGGATAATGAGGATGAAAGCTCTTCCACTACGAGTCTTTGTGTAGAAGATATTCAGAAAAATAAGGATTCAAATAGTATGATTAAAGATAGATTGTCTCAAACTGTTAGGCAGAATTCTAAATTCTTTTTTGACCCAGTTCGGAAATGTAACGGACAGCCTGTACCCTTTCAACAACCAAAGCATTTCACAGGAGGAGTAATGAGGTGGTACCAAGTAGAAGGCATGGAATGGCTTAGGATGCTTTGGGAAAATGGAATTAATGGCATTTTAGCAGATGAAATGGGTTTGGGAAAGACTGTTCAGTGCATTGCTACAATTGCATTGATGATTCAGAGGGGAGTACCTGGACCTTTTCTTGTTTGTGGCCCTTTGTCTACACTTCCTAACTGGATGGCTGAATTTAAAAGATTTACTCCAGAAGCTCAAAAGTCTTGGGACAGAGAGTCCACTGAAATTCGGTACCGCAGACTTCAGCATTTGCTTGAAAAAAGCAATATCTACTCAAAATTTTTGTTGACTAAAATGGAACAACAGCAATTGGAGGAACAGAAGAAGAAAGAGAAGTTGGAGAAAAAAAAACGGTCATTAAAACTTACAGAGGGTAAAAGTTTAGTTGATGGGAATGGAGAGAAACCAGTCATGAAAAAGAAAAGAGGAAGAGAAGATGAATCTTATAATATTTCAGAGGTCATGTCAAAAGAGGAAATTTTGTCCGTAGCTAAAAAACATAAGGATAATGAGGATGAAAGCTCTTCCACTACGAGTCTTTGTGTAGAAGATATTCAGAAAAATAAGGATTCAAATAGTATGATTAAAGATAGATTGTCTCAAACTGTTAGGCAGAATTCTAAATTCTTTTTTGACCCAGTTCGGAAATGTAACGGACAGCCTGTACCCTTTCAACAACCAAAGCATTTCACAGGAGGAGTAATGAGGTGGTACCAAGTAGAAGGCATGGAATGGCTTAGGATGCTTTGGGAAAATGGAATTAATGGCATTTTAGCAGATGAAATGGGTTTGGGAAAGACTGTTCAGTGCATTGCTACAATTGCATTGATGATTCAGAGGGGAGTACCTGGACCTTTTCTTGTTTGTGGCCCTTTGTCTACACTTCCTAACTGGATGGCTGAATTTAAAAGATTTACTCCAGAA
Peptide sequence:
MEQQQLEEQKKKEKLEKKKRSLKLTEGKSLVDGNGEKPVMKKKRGREDESYNISEVMSKEEILSVAKKHKDNEDESSSTTSLCVEDIQKNKDSNSMIKDRLSQTVRQNSKFFFDPVRKCNGQPVPFQQPKHFTGGVMRWYQVEGMEWLRMLWENGINGILADEMGLGKTVQCIATIALMIQRGVPGPFLVCGPLSTLPNWMAEFKRFTPEAQKSWDRESTEIRYRRLQHLLEKSNIYSKFLLTKMEQQQLEEQKKKEKLEKKKRSLKLTEGKSLVDGNGEKPVMKKKRGREDESYNISEVMSKEEILSVAKKHKDNEDESSSTTSLCVEDIQKNKDSNSMIKDRLSQTVRQNSKFFFDPVRKCNGQPVPFQQPKHFTGGVMRWYQVEGMEWLRMLWENGINGILADEMGLGKTVQCIATIALMIQRGVPGPFLVCGPLSTLPNWMAEFKRFTPE
IRESfinder result
IRESfinder score
0.645549766
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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