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mmu_circSusd1_270
Basic information of circular RNA
PanCircBase ID:
mmu_circSusd1_270
mm39_Chr. Position ID:
chr4|59423994|59428064|-
Gene name:
Susd1
Transcript:
ENSMUST00000040166.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,3956
Genomic length:
4070
Exon/intron sizes in nt:
156,114
Flanking exon/introns:
chr4:59412322-59423994|chr4:59428064-59438205
Splice length:
270
Other database IDs:
CIRCpedia: MMU_CIRCpedia_37391, circAtlas: mmu-Susd1_0014
circBase: hsa_circ_0088062, circAtlas: hsa-SUSD1_0016, CIRCpedia: HSA_CIRCpedia_62328
Human Ortholog IDs:
Mature spliced Sequence:
ATGTAGATGTCTGTGCCACGTGCCATGAACATGCCACATGCCAGCAAAAGGAAGGGAAGAGAATCTGCATTTGCAACTATGGGTTTTGGGGCAACGGGAGGACACGGTGTGTTGACAAAGATGAGTGCCAGTTTGGAGCCACTGTGATCTGTGGGAACCACACATCCTGCCACAACACGCCTGGAGGGTTCTACTGCATTTGCCACGAGGGCTACCGGGCCACAAATAACAACGAGACGTTCATCCCCAATGACGGCACTTTCTGTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGGGCCACAAATAACAACG
60.11
GCCCCAAAACCCATAGTTGC
59.75
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCGGGCCACAAATAACAACG
60.11
CGTTGCCCCAAAACCCATAG
59.47
152
PCR template sequence:
CACAACACGCCTGGAGGGTTCTACTGCATTTGCCACGAGGGCTACCGGGCCACAAATAACAACGAGACGTTCATCCCCAATGACGGCACTTTCTGTGCAGATGTAGATGTCTGTGCCACGTGCCATGAACATGCCACATGCCAGCAAAAGGAAGGGAAGAGAATCTGCATTTGCAACTATGGGTTTTGGGGCAACGGGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-106b-5p(1), mmu-miR-182-5p(1), mmu-miR-183-5p(1), mmu-miR-466a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTTTCTGTGCAGATGTAGATGTCTG
siRNA sets
NA
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
0.203903039
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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