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mmu_circAlkbh8_737
Basic information of circular RNA
PanCircBase ID:
mmu_circAlkbh8_737
mm39_Chr. Position ID:
chr9|3349419|3382843|+
Gene name:
Alkbh8
Transcript:
ENSMUST00000212294.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,7,8,9,10
Exon/intron offsets:
0,10064,18444,20238,33274
Genomic length:
33424
Exon/intron sizes in nt:
71,107,152,257,150
Flanking exon/introns:
chr9:3345876-3349419|chr9:3382843-3385041
Splice length:
737
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAATTCCTGCCCATATTGACACGCATTCTGCATTTGAAGATGAGATTATTTCTCTCAGTTTGGGGTCAGCGATTGTTATGGATTTCAAGCATCCAGAGGGTGTCACAGTACAAGTTATGTTACCTCGTCGGAGTTTGCTGGTGATGACAGGAGAATCTAGATACCTTTGGACTCATGGAATTACACCTCGAAAATTTGATACCGTCCAAGCGTCTGAGCAATTTAAAGGGGGAATAATCACCAGTGACATTGGAGACTTGACTTTAAGCAAGAGGGGAATGCGCACATCCTTTACGTTTAGAAAAGTGAGGCGAATGCCCTGCAATTGTAGTTACTCCTCAGTCTGCGACAGACAAAGGAAGGCCACACCTCCATCCCTTACAGAGAGCAGTAAAGAAGCATTGGAGTTAGAGCAAAAGCATGTCCATCAAGTGTACAATGAGATTGCAAGTCACTTCAGCAGCACAAGACATAGCCCATGGCCACGCATAGTAGAGTTCCTGAAAGCTTTGCCAAGTGGTTCCATAGTGGCAGATATCGGATGTGGAAATGGAAAATACCTTGGCATCAACAAGGACTTATATATGATTGGGTGTGATCGTAGCCAGAACCTTGTGGACATTTGTAGAGAGAGGCAGTTCCAGGCCTTAGTCTGCGATGCGCTGGCTGTTCCTGTCAGAAGTGGGTCTTGTGATGCTTGCATCTCTATTGCCGTCATTCACCACTTTGCAACTGCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGGCTGTTCCTGTCAGAA
60.25
ATCGCTGACCCCAAACTGAG
60.04
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGGCTGTTCCTGTCAGAA
60.25
ACAATCGCTGACCCCAAACT
59.89
152
PCR template sequence:
GTTCCAGGCCTTAGTCTGCGATGCGCTGGCTGTTCCTGTCAGAAGTGGGTCTTGTGATGCTTGCATCTCTATTGCCGTCATTCACCACTTTGCAACTGCAGAATTCCTGCCCATATTGACACGCATTCTGCATTTGAAGATGAGATTATTTCTCTCAGTTTGGGGTCAGCGATTGTTATGGATTTCAAGCATCCAGAGGG
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-148b-3p(1), mmu-miR-216a-5p(1), mmu-miR-182-5p(1), mmu-miR-98-5p(1), mmu-miR-300-3p(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTTGCAACTGCAGAATTCCTGCCCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCALKBH8_737_ORF_1
0.6371
0.017287563
0.855672181
804
ORF sequence:
ATGGATTTCAAGCATCCAGAGGGTGTCACAGTACAAGTTATGTTACCTCGTCGGAGTTTGCTGGTGATGACAGGAGAATCTAGATACCTTTGGACTCATGGAATTACACCTCGAAAATTTGATACCGTCCAAGCGTCTGAGCAATTTAAAGGGGGAATAATCACCAGTGACATTGGAGACTTGACTTTAAGCAAGAGGGGAATGCGCACATCCTTTACGTTTAGAAAAGTGAGGCGAATGCCCTGCAATTGTAGTTACTCCTCAGTCTGCGACAGACAAAGGAAGGCCACACCTCCATCCCTTACAGAGAGCAGTAAAGAAGCATTGGAGTTAGAGCAAAAGCATGTCCATCAAGTGTACAATGAGATTGCAAGTCACTTCAGCAGCACAAGACATAGCCCATGGCCACGCATAGTAGAGTTCCTGAAAGCTTTGCCAAGTGGTTCCATAGTGGCAGATATCGGATGTGGAAATGGAAAATACCTTGGCATCAACAAGGACTTATATATGATTGGGTGTGATCGTAGCCAGAACCTTGTGGACATTTGTAGAGAGAGGCAGTTCCAGGCCTTAGTCTGCGATGCGCTGGCTGTTCCTGTCAGAAGTGGGTCTTGTGATGCTTGCATCTCTATTGCCGTCATTCACCACTTTGCAACTGCAGAATTCCTGCCCATATTGACACGCATTCTGCATTTGAAGATGAGATTATTTCTCTCAGTTTGGGGTCAGCGATTGTTATGGATTTCAAGCATCCAGAGGGTGTCACAGTACAAGTTATGTTACCTCGTCGGAGTTTGCTGGTGA
Peptide sequence:
MDFKHPEGVTVQVMLPRRSLLVMTGESRYLWTHGITPRKFDTVQASEQFKGGIITSDIGDLTLSKRGMRTSFTFRKVRRMPCNCSYSSVCDRQRKATPPSLTESSKEALELEQKHVHQVYNEIASHFSSTRHSPWPRIVEFLKALPSGSIVADIGCGNGKYLGINKDLYMIGCDRSQNLVDICRERQFQALVCDALAVPVRSGSCDACISIAVIHHFATAEFLPILTRILHLKMRLFLSVWGQRLLWISSIQRVSQYKLCYLVGVCW
IRESfinder result
IRESfinder score
0.603223326
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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