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mmu_circCrem_363
Basic information of circular RNA
PanCircBase ID:
mmu_circCrem_363
mm39_Chr. Position ID:
chr18|3299161|3327591|-
Gene name:
Crem
Transcript:
ENSMUST00000150235.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,26199,28332
Genomic length:
28430
Exon/intron sizes in nt:
147,118,98
Flanking exon/introns:
chr18:3295416-3299161|chr18:3327591-3337379
Splice length:
363
Other database IDs:
CIRCpedia: MMU_CIRCpedia_222866, circAtlas: mmu-Crem_0010
Human Ortholog IDs:
Mature spliced Sequence:
GATAAATAAGGAAAACAGGGAAGGAACAAAGCATTGATTACACATGTAATAATAATGAGCAAATGTGGCAGGAAAAAGTATATGAGGACAAATGTAAGGCAAATGACCATGGAAACAGTTGAATCACAGCAGGATCGAAGTGTAACACGTTCTGTGGCAGAGCATAGCTCTGCTCATATGCAGACTGGTCAAATTTCTGTTCCTACTCTAGCTCAGGTTTCTGTAGCTGGATCAGGCACTGGAAGAGGCTCCCCAGCTGTGACTCTAGTACAGTTACCTTCAGGCCAAACTGTACAGGTCCAGGGAGTTATTCAGACACCACATCCATCGGTTATTCAATCACCACAAATACAAACTGTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCAAACTGTACAGGTCCA
59.89
TTTCCTGCCACATTTGCTCA
58.3
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCAAACTGTACAGGTCCA
59.89
TCCTGCCACATTTGCTCATT
58.07
154
PCR template sequence:
TCTAGTACAGTTACCTTCAGGCCAAACTGTACAGGTCCAGGGAGTTATTCAGACACCACATCCATCGGTTATTCAATCACCACAAATACAAACTGTTCAGGATAAATAAGGAAAACAGGGAAGGAACAAAGCATTGATTACACATGTAATAATAATGAGCAAATGTGGCAGGAAAAAGTATATGAGGACAAATGTAAGGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-370-3p(1), mmu-miR-673-5p(1), mmu-miR-344-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAAACTGTTCAGGATAAATAAGGAA
siRNA sets
TTTATCCTGAACAGTTTGT, TTATTTATCCTGAACAGTT, TTCCTTATTTATCCTGAAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCREM_363_ORF_1
1.0229
-0.112143086
0.17923292
318
ORF sequence:
ATGAGCAAATGTGGCAGGAAAAAGTATATGAGGACAAATGTAAGGCAAATGACCATGGAAACAGTTGAATCACAGCAGGATCGAAGTGTAACACGTTCTGTGGCAGAGCATAGCTCTGCTCATATGCAGACTGGTCAAATTTCTGTTCCTACTCTAGCTCAGGTTTCTGTAGCTGGATCAGGCACTGGAAGAGGCTCCCCAGCTGTGACTCTAGTACAGTTACCTTCAGGCCAAACTGTACAGGTCCAGGGAGTTATTCAGACACCACATCCATCGGTTATTCAATCACCACAAATACAAACTGTTCAGGATAAATAA
Peptide sequence:
MSKCGRKKYMRTNVRQMTMETVESQQDRSVTRSVAEHSSAHMQTGQISVPTLAQVSVAGSGTGRGSPAVTLVQLPSGQTVQVQGVIQTPHPSVIQSPQIQTVQDK
IRESfinder result
IRESfinder score
0.655004572
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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