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mmu_circQser1_236
Basic information of circular RNA
PanCircBase ID:
mmu_circQser1_236
mm39_Chr. Position ID:
chr2|104596303|104600525|-
Gene name:
Qser1
Transcript:
ENSMUST00000117237.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
9,8
Exon/intron offsets:
0,4084
Genomic length:
4222
Exon/intron sizes in nt:
98,138
Flanking exon/introns:
chr2:104593308-104596303|chr2:104600525-104606516
Splice length:
236
Other database IDs:
CIRCpedia: MMU_CIRCpedia_222100, circAtlas: mmu-Qser1_0013
circBase: hsa_circ_0021582, CIRCpedia: HSA_CIRCpedia_4120
Human Ortholog IDs:
Mature spliced Sequence:
GCTTTGAGCCTCCAGCCCCCTCTGTCACTCGTTTTCTGAACACAAGAGCAATGAAGGAAACTTTCAAGAGTTACATGGAATTGCTTGTTAGCATTGCTCTGGATCCTGACACCATGCAAGCCCTAGAAAAGAGCAACGATGAGCTACTTTTACCACATATGAAAAAAATAGATGGAATGCTGAATGATAACCGGAAAAGACTTCTTGTGAATCTTCATTTGGACCAGCCATTCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGAATGCTGAATGATAACCGGA
60.12
TGCTAACAAGCAATTCCATGT
56.41
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGAATGCTGAATGATAACCGG
58.79
TGCTAACAAGCAATTCCATGT
56.41
157
PCR template sequence:
CGATGAGCTACTTTTACCACATATGAAAAAAATAGATGGAATGCTGAATGATAACCGGAAAAGACTTCTTGTGAATCTTCATTTGGACCAGCCATTCAAGGCTTTGAGCCTCCAGCCCCCTCTGTCACTCGTTTTCTGAACACAAGAGCAATGAAGGAAACTTTCAAGAGTTACATGGAATTGCTTGTTAGCATTGCTCT
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-205-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCAGCCATTCAAGGCTTTGAGCCTCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCQSER1_236_ORF_1
1.1114
0.099175941
0.238999781
225
ORF sequence:
ATGAAGGAAACTTTCAAGAGTTACATGGAATTGCTTGTTAGCATTGCTCTGGATCCTGACACCATGCAAGCCCTAGAAAAGAGCAACGATGAGCTACTTTTACCACATATGAAAAAAATAGATGGAATGCTGAATGATAACCGGAAAAGACTTCTTGTGAATCTTCATTTGGACCAGCCATTCAAGGCTTTGAGCCTCCAGCCCCCTCTGTCACTCGTTTTCTGA
Peptide sequence:
MKETFKSYMELLVSIALDPDTMQALEKSNDELLLPHMKKIDGMLNDNRKRLLVNLHLDQPFKALSLQPPLSLVF
IRESfinder result
IRESfinder score
0.732977588
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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