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mmu_circSmurf2_478
Basic information of circular RNA
PanCircBase ID:
mmu_circSmurf2_478
mm39_Chr. Position ID:
chr11|106747006|106762436|-
Gene name:
Smurf2
Transcript:
ENSMUST00000103067.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,3531,8531,12354,15321
Genomic length:
15430
Exon/intron sizes in nt:
8,48,56,61,34,109
Flanking exon/introns:
chr11:106743475-106747006|chr11:106762436-106811006
Splice length:
478
Other database IDs:
CIRCpedia: MMU_CIRCpedia_220663, circAtlas: mmu-Smurf2_0014
circBase: hsa_circ_0107466, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_22060
Human Ortholog IDs:
Mature spliced Sequence:
GTCTTCCTGATCCATTTGCTAAGGTGGTAGTTGATGGTTCTGGGCAGTGCCATTCTACAGATACTGTGAAGAACACACTTGATCCAAAGTGGAATCAGCATTATGACCTGTATATCGGAAAGTCTGATTCAGTTACGATCAGCGTATGGAATCATAAGAAGATCCATAAGAAGCAAGGTGCTGGATTTCTTGGTTGTGTTCGTCTTCTTTCCAATGCCATCAACCGCCTCAAGGACACTGGTTATCAGAGGTTGGATTTATGCAAACTGGGGCCAAATGACAATGATACAGTTCGAGGACAAATTGTAGTAAGTCTTCAGTCCAGAGACCGAATAGGCACGGGAGGACAAGTTGTGGACTGTAGTCGTTTGTTTGACAATGATTTGCCAGATGGTTGGGAAGAAAGGCGGACTGCCTCGGGAAGAATCCAGTATCTAAACCACATCACAAGAACTACACAGTGGGAACGCCCAACACG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCAGATGGTTGGGAAGAA
59.22
ACTGCCCAGAACCATCAACT
59.23
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGCCAGATGGTTGGGAAGA
59.22
ACTGCCCAGAACCATCAACT
59.23
143
PCR template sequence:
ATGATTTGCCAGATGGTTGGGAAGAAAGGCGGACTGCCTCGGGAAGAATCCAGTATCTAAACCACATCACAAGAACTACACAGTGGGAACGCCCAACACGGTCTTCCTGATCCATTTGCTAAGGTGGTAGTTGATGGTTCTGGGCAGTGCCATTCTACAGATACTGTGAAGAACACACTTGATCCAAAGTGGAATCAGCA
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-155-5p(1), mmu-miR-139-5p(1), mmu-miR-495-3p(1), mmu-miR-183-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AACGCCCAACACGGTCTTCCTGATCC
siRNA sets
ATCAGGAAGACCGTGTTGG, TCAGGAAGACCGTGTTGGG, GATCAGGAAGACCGTGTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.457420953
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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