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mmu_circCrim1_174
Basic information of circular RNA
PanCircBase ID:
mmu_circCrim1_174
mm39_Chr. Position ID:
chr17|78545170|78545344|+
Gene name:
Crim1
Transcript:
ENSMUST00000112498.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
174
Exon/intron sizes in nt:
174
Flanking exon/introns:
chr17:78508528-78545170|chr17:78545344-78587401
Splice length:
174
Other database IDs:
circBase: mmu_circ_0007016, CIRCpedia: MMU_CIRCpedia_29835, circAtlas: mmu-Crim1_0005
circBase: hsa_circ_0002017, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_41041
Human Ortholog IDs:
Mature spliced Sequence:
ATGAGGACTGGGATGATGACCAGCTAATAGGTTTTGAACCCTGCAATGAAAACCTCATCTCCGGCTGCAACATAATCAATGGGAAATGCGAATGTGGTACCATCCGAACCTGCAACAATCCCTTTGAGTTTCCAAGGAAGGACATGTGCCTTTCAGCATTAAAGAGGATCGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTACCATCCGAACCTGCAA
60.04
ATGTTGCAGCCGGAGATGAG
60.46
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCATCCGAACCTGCAACAA
60.18
ATGTTGCAGCCGGAGATGAG
60.46
149
PCR template sequence:
GCGAATGTGGTACCATCCGAACCTGCAACAATCCCTTTGAGTTTCCAAGGAAGGACATGTGCCTTTCAGCATTAAAGAGGATCGAAGATGAGGACTGGGATGATGACCAGCTAATAGGTTTTGAACCCTGCAATGAAAACCTCATCTCCGGCTGCAACATAATCAATGGGAAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-541-5p(1), mmu-miR-362-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGAGGATCGAAGATGAGGACTGGGA
siRNA sets
CAGTCCTCATCTTCGATCC, AGTCCTCATCTTCGATCCT, GTCCTCATCTTCGATCCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCRIM1_174_ORF_1
0.7307
0.240027395
0.191708824
204
ORF sequence:
ATGTGCCTTTCAGCATTAAAGAGGATCGAAGATGAGGACTGGGATGATGACCAGCTAATAGGTTTTGAACCCTGCAATGAAAACCTCATCTCCGGCTGCAACATAATCAATGGGAAATGCGAATGTGGTACCATCCGAACCTGCAACAATCCCTTTGAGTTTCCAAGGAAGGACATGTGCCTTTCAGCATTAAAGAGGATCGAA
Peptide sequence:
MCLSALKRIEDEDWDDDQLIGFEPCNENLISGCNIINGKCECGTIRTCNNPFEFPRKDMCLSALKRIE
IRESfinder result
IRESfinder score
0.324987164
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
RPF, cORF, m6A
mmu_circCrim1_001
Evidence
Peptide sequence:
MCLSALKRIEDEDWDDDQLIGFEPCNENLISGCNIINGKCECGTIRTCNNPFEFPRKDMCLSALKRIEDEDWDDDQLIGFEPCNENLISGCNIINGKCECGTIRTCNNPFEFPRKD
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