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mmu_circLarp1_241
Basic information of circular RNA
PanCircBase ID:
mmu_circLarp1_241
mm39_Chr. Position ID:
chr11|57931515|57932478|+
Gene name:
Larp1
Transcript:
ENSMUST00000178636.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,4
Exon/intron offsets:
0,788
Genomic length:
963
Exon/intron sizes in nt:
66,175
Flanking exon/introns:
chr11:57931278-57931515|chr11:57932478-57933055
Splice length:
241
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTTGGTGATTTTGGAGATGCAGTCAACTGGCCTACACCTGGAGAGATAGCCCACAAAAGTGTGCAGCCACAGTCCCACAAGCCTCAGCCTGCTCGTAAGTTGCCACCTAAGAAGGACATGAAGGAGCAAGAGAAAGGAGATGGAAGTGATAGTAAGGAGAGCCCAAAAACAAAGTCGGATGAATCGGGGGAGGAAAAGAATGGGGATGAGGACTGCCAGCGAGGCGGGCAGAAGAAGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGGGAGGAAAAGAATGGGG
60.03
CTGAGGCTTGTGGGACTGTG
60.6
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGTCGGATGAATCGGGGG
59.82
CTGTGGCTGCACACTTTTGT
59.54
143
PCR template sequence:
GGAAGTGATAGTAAGGAGAGCCCAAAAACAAAGTCGGATGAATCGGGGGAGGAAAAGAATGGGGATGAGGACTGCCAGCGAGGCGGGCAGAAGAAGAAAGGTTGGTGATTTTGGAGATGCAGTCAACTGGCCTACACCTGGAGAGATAGCCCACAAAAGTGTGCAGCCACAGTCCCACAAGCCTCAGCCTGCTCGTAAGT
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-217-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGAAGAAGAAAGGTTGGTGATTTTG
siRNA sets
AAAATCACCAACCTTTCTT, AAATCACCAACCTTTCTTC, CAAAATCACCAACCTTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLARP1_241_ORF_1
0.8554
0.268468881
0.475512141
342
ORF sequence:
ATGGAAGTGATAGTAAGGAGAGCCCAAAAACAAAGTCGGATGAATCGGGGGAGGAAAAGAATGGGGATGAGGACTGCCAGCGAGGCGGGCAGAAGAAGAAAGGTTGGTGATTTTGGAGATGCAGTCAACTGGCCTACACCTGGAGAGATAGCCCACAAAAGTGTGCAGCCACAGTCCCACAAGCCTCAGCCTGCTCGTAAGTTGCCACCTAAGAAGGACATGAAGGAGCAAGAGAAAGGAGATGGAAGTGATAGTAAGGAGAGCCCAAAAACAAAGTCGGATGAATCGGGGGAGGAAAAGAATGGGGATGAGGACTGCCAGCGAGGCGGGCAGAAGAAGAAA
Peptide sequence:
MEVIVRRAQKQSRMNRGRKRMGMRTASEAGRRRKVGDFGDAVNWPTPGEIAHKSVQPQSHKPQPARKLPPKKDMKEQEKGDGSDSKESPKTKSDESGEEKNGDEDCQRGGQKKK
IRESfinder result
IRESfinder score
0.262571842
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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