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mmu_circRanbp17_213
Basic information of circular RNA
PanCircBase ID:
mmu_circRanbp17_213
mm39_Chr. Position ID:
chr11|33252766|33268347|-
Gene name:
Ranbp17
Transcript:
ENSMUST00000102815.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
19,18
Exon/intron offsets:
0,15472
Genomic length:
15581
Exon/intron sizes in nt:
1,04,109
Flanking exon/introns:
chr11:33247430-33252766|chr11:33268347-33268427
Splice length:
213
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AGTGAACACTTCCCGTTTCTTGGCATCAGTGAAACTTACAATGTGGGTGACTTCAGGTGCCGGACAACCTTCTACACAGCCCTCACTCGCCTTCTGATGGTAGACCTGGGTGAAGATGAGGATGAATTTGAGAATTTTATGCTGCCTCTCACAGTCTCTTTTGAAACAGTGTTACAAATATTCAACAATAACTTTAAACAGGAAGAAGTAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGCTGCCTCTCACAGTCTC
59.46
TGTAGAAGGTTGTCCGGCAC
59.97
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGCTGCCTCTCACAGTCTC
59.46
GTGTAGAAGGTTGTCCGGCA
59.97
152
PCR template sequence:
AGATGAGGATGAATTTGAGAATTTTATGCTGCCTCTCACAGTCTCTTTTGAAACAGTGTTACAAATATTCAACAATAACTTTAAACAGGAAGAAGTAAAGAGTGAACACTTCCCGTTTCTTGGCATCAGTGAAACTTACAATGTGGGTGACTTCAGGTGCCGGACAACCTTCTACACAGCCCTCACTCGCCTTCTGATGG
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-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-383-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAAGAAGTAAAGAGTGAACACTTCC
siRNA sets
TTCACTCTTTACTTCTTCC, GTTCACTCTTTACTTCTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRANBP17_213_ORF_1
1.0861
0.195307093
0.486653269
330
ORF sequence:
ATGGTAGACCTGGGTGAAGATGAGGATGAATTTGAGAATTTTATGCTGCCTCTCACAGTCTCTTTTGAAACAGTGTTACAAATATTCAACAATAACTTTAAACAGGAAGAAGTAAAGAGTGAACACTTCCCGTTTCTTGGCATCAGTGAAACTTACAATGTGGGTGACTTCAGGTGCCGGACAACCTTCTACACAGCCCTCACTCGCCTTCTGATGGTAGACCTGGGTGAAGATGAGGATGAATTTGAGAATTTTATGCTGCCTCTCACAGTCTCTTTTGAAACAGTGTTACAAATATTCAACAATAACTTTAAACAGGAAGAAGTAAAG
Peptide sequence:
MVDLGEDEDEFENFMLPLTVSFETVLQIFNNNFKQEEVKSEHFPFLGISETYNVGDFRCRTTFYTALTRLLMVDLGEDEDEFENFMLPLTVSFETVLQIFNNNFKQEEVK
IRESfinder result
IRESfinder score
0.817639857
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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