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mmu_circStxbp6_455
Basic information of circular RNA
PanCircBase ID:
mmu_circStxbp6_455
mm39_Chr. Position ID:
chr12|44908007|44949773|-
Gene name:
Stxbp6
Transcript:
ENSMUST00000053768.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,40649,41635
Genomic length:
41766
Exon/intron sizes in nt:
15,81,66,131
Flanking exon/introns:
chr12:44902660-44908007|chr12:44949773-45066249
Splice length:
455
Other database IDs:
circAtlas: mmu-Stxbp6_0003
circBase: hsa_circ_0031407, circAtlas: hsa-STXBP6_0002, CIRCpedia: HSA_CIRCpedia_84440
Human Ortholog IDs:
Mature spliced Sequence:
TGACAAACAAAAAACCCACACAGGCATCTATCACGAAGGTCAAACAGTTTGAGGGCTCCACATCATTCGTCCGAAGATCCCAATGGATGCTTGAGCAGCTTCGCCAAGTTAATGGTATTGATCCTAATCGGGATTCTGCAGAGTTTGATTTGTTGTTTGAAAATGCCTTTGACCAGTGGGTTGCTAGCACGGCCTCAGAAAAGTGCACCTTCTTCCAGATCCTCCACCACACCTGCCAGAGGTACCTCACAGACAGGAAGCCAGAGTTTATTAACTGCCAATCCAAAATTATGGGAGGAAACAGCATCCTCCATTCAGCAGCTGATAGTGTGACCAGTGCAGTACAGAAGGCAAGCCAGGCCTTGAACGAGCGTGGGGAACGGTTAGGCCGAGCAGAGGAGAAGACAGAAGACATGAAGAACAGTGCCCAGCAGTTTGCAGAAACCGCACACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTAGGCCGAGCAGAGGAGAA
60.32
CGAATGATGTGGAGCCCTCA
59.82
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTAGGCCGAGCAGAGGAGAA
60.32
ACGAATGATGTGGAGCCCTC
59.82
142
PCR template sequence:
CCAGGCCTTGAACGAGCGTGGGGAACGGTTAGGCCGAGCAGAGGAGAAGACAGAAGACATGAAGAACAGTGCCCAGCAGTTTGCAGAAACCGCACACAAGTGACAAACAAAAAACCCACACAGGCATCTATCACGAAGGTCAAACAGTTTGAGGGCTCCACATCATTCGTCCGAAGATCCCAATGGATGCTTGAGCAGCT
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-207(1), mmu-miR-669d-5p(1), mmu-miR-7a-1-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AACCGCACACAAGTGACAAACAAAAA
siRNA sets
TTTTTGTTTGTCACTTGTG, TTGTTTGTCACTTGTGTGC, TTTTGTTTGTCACTTGTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSTXBP6_455_ORF_1
0.9662
0.283496777
0.592898363
372
ORF sequence:
ATGCTTGAGCAGCTTCGCCAAGTTAATGGTATTGATCCTAATCGGGATTCTGCAGAGTTTGATTTGTTGTTTGAAAATGCCTTTGACCAGTGGGTTGCTAGCACGGCCTCAGAAAAGTGCACCTTCTTCCAGATCCTCCACCACACCTGCCAGAGGTACCTCACAGACAGGAAGCCAGAGTTTATTAACTGCCAATCCAAAATTATGGGAGGAAACAGCATCCTCCATTCAGCAGCTGATAGTGTGACCAGTGCAGTACAGAAGGCAAGCCAGGCCTTGAACGAGCGTGGGGAACGGTTAGGCCGAGCAGAGGAGAAGACAGAAGACATGAAGAACAGTGCCCAGCAGTTTGCAGAAACCGCACACAAGTGA
Peptide sequence:
MLEQLRQVNGIDPNRDSAEFDLLFENAFDQWVASTASEKCTFFQILHHTCQRYLTDRKPEFINCQSKIMGGNSILHSAADSVTSAVQKASQALNERGERLGRAEEKTEDMKNSAQQFAETAHK
IRESfinder result
IRESfinder score
0.636596765
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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