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mmu_circCaprin2_360
Basic information of circular RNA
PanCircBase ID:
mmu_circCaprin2_360
mm39_Chr. Position ID:
chr6|148761984|148767450|-
Gene name:
Caprin2
Transcript:
ENSMUST00000111569.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
13,12,11,10
Exon/intron offsets:
0,1917,3016,5343
Genomic length:
5466
Exon/intron sizes in nt:
1,02,65,70,123
Flanking exon/introns:
chr6:148760239-148761984|chr6:148767450-148770486
Splice length:
360
Other database IDs:
circBase: hsa_circ_0098350, circAtlas: hsa-CAPRIN2_0020, CIRCpedia: HSA_CIRCpedia_8242
Human Ortholog IDs:
Mature spliced Sequence:
GTGCCTAAGCCCCTGCCTCAGCCTATAGACTCTTCTTCTGCCCTTCCAAAGGATCCAGTATTGAGGAAAGAAAAACTGCAGGACCTCATGAGCCAGATTCAAGGAACTTATAACTTTATGCAAGAGTCTGTTCTAGATTTTGACAAACCCTCAAGTGCAATTCCATCATCACAGCCGCCTTCAGCTTGTCCAGTCTCTACAGTATCTGCAGAACAAAACTTGTCCAACCAAAGTGATTTTCTTCAAGAACCATCACAGGCCTCTTCTCCGGTTACTTGTAGCTCAAATGCTTGCTTGGTGACTACTGATCAGGCTTCTTCGGGATCTGAAACAGAGTTTACGACCTCAGAGACCCCTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGATCAGGCTTCTTCGGG
59.46
GCTCATGAGGTCCTGCAGTT
60.04
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGCTTCTTCGGGATCTGA
59.17
GCTCATGAGGTCCTGCAGTT
60.04
144
PCR template sequence:
CTCTTCTCCGGTTACTTGTAGCTCAAATGCTTGCTTGGTGACTACTGATCAGGCTTCTTCGGGATCTGAAACAGAGTTTACGACCTCAGAGACCCCTGAGGTGCCTAAGCCCCTGCCTCAGCCTATAGACTCTTCTTCTGCCCTTCCAAAGGATCCAGTATTGAGGAAAGAAAAACTGCAGGACCTCATGAGCCAGATTC
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-92a-3p(1), mmu-miR-709(1), mmu-miR-25-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAGACCCCTGAGGTGCCTAAGCCCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCAPRIN2_360_ORF_1
1.0605
0.023980505
0.798701723
633
ORF sequence:
ATGAGCCAGATTCAAGGAACTTATAACTTTATGCAAGAGTCTGTTCTAGATTTTGACAAACCCTCAAGTGCAATTCCATCATCACAGCCGCCTTCAGCTTGTCCAGTCTCTACAGTATCTGCAGAACAAAACTTGTCCAACCAAAGTGATTTTCTTCAAGAACCATCACAGGCCTCTTCTCCGGTTACTTGTAGCTCAAATGCTTGCTTGGTGACTACTGATCAGGCTTCTTCGGGATCTGAAACAGAGTTTACGACCTCAGAGACCCCTGAGGTGCCTAAGCCCCTGCCTCAGCCTATAGACTCTTCTTCTGCCCTTCCAAAGGATCCAGTATTGAGGAAAGAAAAACTGCAGGACCTCATGAGCCAGATTCAAGGAACTTATAACTTTATGCAAGAGTCTGTTCTAGATTTTGACAAACCCTCAAGTGCAATTCCATCATCACAGCCGCCTTCAGCTTGTCCAGTCTCTACAGTATCTGCAGAACAAAACTTGTCCAACCAAAGTGATTTTCTTCAAGAACCATCACAGGCCTCTTCTCCGGTTACTTGTAGCTCAAATGCTTGCTTGGTGACTACTGATCAGGCTTCTTCGGGATCTGAAACAGAGTTTACGACCTCAGAGACCCCTGAG
Peptide sequence:
MSQIQGTYNFMQESVLDFDKPSSAIPSSQPPSACPVSTVSAEQNLSNQSDFLQEPSQASSPVTCSSNACLVTTDQASSGSETEFTTSETPEVPKPLPQPIDSSSALPKDPVLRKEKLQDLMSQIQGTYNFMQESVLDFDKPSSAIPSSQPPSACPVSTVSAEQNLSNQSDFLQEPSQASSPVTCSSNACLVTTDQASSGSETEFTTSETPE
IRESfinder result
IRESfinder score
0.803294457
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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