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mmu_circSlc26a8_398
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc26a8_398
mm39_Chr. Position ID:
chr17|28878566|28882702|-
Gene name:
Slc26a8
Transcript:
ENSMUST00000114764.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,7,6
Exon/intron offsets:
0,2272,3971
Genomic length:
4136
Exon/intron sizes in nt:
8,31,50,165
Flanking exon/introns:
chr17:28873966-28878566|chr17:28882702-28888876
Splice length:
398
Other database IDs:
circAtlas: mmu-Slc26a8_0006
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_179440
Human Ortholog IDs:
Mature spliced Sequence:
CTGTCAATGGGTATGTTGGGCATGGGCTTCATGGCCACATATCTTCCAGAGGCTGCAACCAGCGCTTATCTAGCAGCTGTGGCCCTGCACATCATACTGGCCCAGATGACATGCATCTTGGGGATTATGGTCAGTTTCCATGCTGGGCCCATCTCCTTCATCTACAACATAATTAACTACTGCATAGCTCTCCCCAAAGCGAACTCTACCAGCATCCTGCTGTTCATCACCTCTGTGGTGGCTCTGAGAATCAACAAGTGCATCCGCATTACCTTCAACCGCTACCCTATCGAGTTCCCCATGGAGCTGCTGCTGATTCTTGGCTTCAGCTTACTTACAAGCAAGATAACCATGGCCACAGAAAACAGCAAGATGCTGATGAACATGATTCCATACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCATGGCCACAGAAAACAGC
60.04
AGTATGATGTGCAGGGCCAC
60.11
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCATGGCCACAGAAAACAGC
60.04
CAGTATGATGTGCAGGGCCA
60.11
148
PCR template sequence:
CCATGGAGCTGCTGCTGATTCTTGGCTTCAGCTTACTTACAAGCAAGATAACCATGGCCACAGAAAACAGCAAGATGCTGATGAACATGATTCCATACAGCTGTCAATGGGTATGTTGGGCATGGGCTTCATGGCCACATATCTTCCAGAGGCTGCAACCAGCGCTTATCTAGCAGCTGTGGCCCTGCACATCATACTGG
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-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGATTCCATACAGCTGTCAATGGGTA
siRNA sets
TGACAGCTGTATGGAATCA, TTGACAGCTGTATGGAATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC26A8_398_ORF_1
1.1581
0.232837625
0.768436686
465
ORF sequence:
ATGGGTATGTTGGGCATGGGCTTCATGGCCACATATCTTCCAGAGGCTGCAACCAGCGCTTATCTAGCAGCTGTGGCCCTGCACATCATACTGGCCCAGATGACATGCATCTTGGGGATTATGGTCAGTTTCCATGCTGGGCCCATCTCCTTCATCTACAACATAATTAACTACTGCATAGCTCTCCCCAAAGCGAACTCTACCAGCATCCTGCTGTTCATCACCTCTGTGGTGGCTCTGAGAATCAACAAGTGCATCCGCATTACCTTCAACCGCTACCCTATCGAGTTCCCCATGGAGCTGCTGCTGATTCTTGGCTTCAGCTTACTTACAAGCAAGATAACCATGGCCACAGAAAACAGCAAGATGCTGATGAACATGATTCCATACAGCTGTCAATGGGTATGTTGGGCATGGGCTTCATGGCCACATATCTTCCAGAGGCTGCAACCAGCGCTTATCTAG
Peptide sequence:
MGMLGMGFMATYLPEAATSAYLAAVALHIILAQMTCILGIMVSFHAGPISFIYNIINYCIALPKANSTSILLFITSVVALRINKCIRITFNRYPIEFPMELLLILGFSLLTSKITMATENSKMLMNMIPYSCQWVCWAWASWPHIFQRLQPALI
IRESfinder result
IRESfinder score
0.533040176
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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