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mmu_circHsd17b12_524
Basic information of circular RNA
PanCircBase ID:
mmu_circHsd17b12_524
mm39_Chr. Position ID:
chr2|93874217|93947821|-
Gene name:
Hsd17b12
Transcript:
ENSMUST00000028619.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
9,8,7,6,5,4,3,2
Exon/intron offsets:
0,1488,8381,21681,22536,39294,71120,73557
Genomic length:
73604
Exon/intron sizes in nt:
66,82,35,45,65,108,76,47
Flanking exon/introns:
chr2:93864421-93874217|chr2:93947821-93988054
Splice length:
524
Other database IDs:
circBase: hsa_circ_0021783, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_4393
Human Ortholog IDs:
Mature spliced Sequence:
TTGTTACAGGTGGCACTGATGGAATTGGAAAAGCATATGCAGAAGAGTTAGCAAAACGTGGAATGAAGATTGTCCTGATCAGCAGGTCCCAAGATAAACTGAATCAGGTTTCCAACAACATCAAAGAAAAATTCAACGTTGAAACAAGGACCATTGCTGTCGACTTTTCATTGGATGATATTTATGATAAAATTAAGACAGGCCTGTCTGGTCTTGAGATTGGCGTTTTAGTGAACAACGTGGGCATGTCATACGAGTATCCGGAATACTTTCTGGAAATTCCCGACTTGGACAACACCATCAAGAAACTGATAAATATTAATGTGCTTTCCGTTTGCAAGGTGACACGCTTGGTGCTGCCTGGCATGGTAGAAAGATCTAAAGGGGTGATTCTCAACATCTCCTCAGCCAGTGGCATGCTCCCAGTTCCATTGTTGACAATCTACTCTGCAACCAAGGCCTTTGTAGATTTCTTCTCTCAGTGCCTCCATGAGGAGTATAAGAGCAAGGGCATCTTTGTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCTGCAACCAAGGCCTTT
60.11
TCTTGGGACCTGCTGATCAG
59.09
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCTGCAACCAAGGCCTTTG
59.68
TCTTGGGACCTGCTGATCAG
59.09
173
PCR template sequence:
AGTTCCATTGTTGACAATCTACTCTGCAACCAAGGCCTTTGTAGATTTCTTCTCTCAGTGCCTCCATGAGGAGTATAAGAGCAAGGGCATCTTTGTGCAGTTGTTACAGGTGGCACTGATGGAATTGGAAAAGCATATGCAGAAGAGTTAGCAAAACGTGGAATGAAGATTGTCCTGATCAGCAGGTCCCAAGATAAACT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-132-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATCTTTGTGCAGTTGTTACAGGTGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHSD17B12_524_ORF_1
1.1488
0.2391015
0.824670262
513
ORF sequence:
ATGAAGATTGTCCTGATCAGCAGGTCCCAAGATAAACTGAATCAGGTTTCCAACAACATCAAAGAAAAATTCAACGTTGAAACAAGGACCATTGCTGTCGACTTTTCATTGGATGATATTTATGATAAAATTAAGACAGGCCTGTCTGGTCTTGAGATTGGCGTTTTAGTGAACAACGTGGGCATGTCATACGAGTATCCGGAATACTTTCTGGAAATTCCCGACTTGGACAACACCATCAAGAAACTGATAAATATTAATGTGCTTTCCGTTTGCAAGGTGACACGCTTGGTGCTGCCTGGCATGGTAGAAAGATCTAAAGGGGTGATTCTCAACATCTCCTCAGCCAGTGGCATGCTCCCAGTTCCATTGTTGACAATCTACTCTGCAACCAAGGCCTTTGTAGATTTCTTCTCTCAGTGCCTCCATGAGGAGTATAAGAGCAAGGGCATCTTTGTGCAGTTGTTACAGGTGGCACTGATGGAATTGGAAAAGCATATGCAGAAGAGTTAG
Peptide sequence:
MKIVLISRSQDKLNQVSNNIKEKFNVETRTIAVDFSLDDIYDKIKTGLSGLEIGVLVNNVGMSYEYPEYFLEIPDLDNTIKKLININVLSVCKVTRLVLPGMVERSKGVILNISSASGMLPVPLLTIYSATKAFVDFFSQCLHEEYKSKGIFVQLLQVALMELEKHMQKS
IRESfinder result
IRESfinder score
0.672616636
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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