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mmu_circ2700049A03Rik_264
Basic information of circular RNA
PanCircBase ID:
mmu_circ2700049A03Rik_264
mm39_Chr. Position ID:
chr12|71262815|71266073|+
Gene name:
2700049A03Rik
Transcript:
ENSMUST00000149564.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
28,29
Exon/intron offsets:
0,3149
Genomic length:
3258
Exon/intron sizes in nt:
155,109
Flanking exon/introns:
chr12:71241240-71262815|chr12:71266073-71289717
Splice length:
264
Other database IDs:
circBase: mmu_circ_0004161, CIRCpedia: MMU_CIRCpedia_27731, circAtlas: mmu-2700049A03Rik_0001
circAtlas: hsa-KIAA0586_0101
Human Ortholog IDs:
Mature spliced Sequence:
GTAATATTTGTGAAGATTTATGTGCCAGTCATGGTCCAATGAGCTTAAGGGAGCTGGAGTTGCAGCCTGATTCTAACCTTATTCTTCCCATAACACACACTACAACAGCAGTCAGCGATGGTAATTTACCAGAAGCAGCTGAAGATTTTTCTCAGTACCAACAAAAGCAAGATTCAGACATTAAACAAGTTGAACACAAGCCAATACAAAGACATCTAACCAGTGTAAGAAATAAACCTGACAGTACACTTTCACAGCATCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAAGTTGAACACAAGCCAA
56.29
CTGCAACTCCAGCTCCCTTA
59.38
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AACAAGTTGAACACAAGCCA
56.29
CTGCAACTCCAGCTCCCTTA
59.38
146
PCR template sequence:
AAGCAAGATTCAGACATTAAACAAGTTGAACACAAGCCAATACAAAGACATCTAACCAGTGTAAGAAATAAACCTGACAGTACACTTTCACAGCATCAAGGTAATATTTGTGAAGATTTATGTGCCAGTCATGGTCCAATGAGCTTAAGGGAGCTGGAGTTGCAGCCTGATTCTAACCTTATTCTTCCCATAACACACAC
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-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCACAGCATCAAGGTAATATTTGTGA
siRNA sets
ATATTACCTTGATGCTGTG, AATATTACCTTGATGCTGT, AAATATTACCTTGATGCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC2700049A03RIK_264_ORF_1
1.0742
-0.069338269
0.496869496
489
ORF sequence:
ATGAGCTTAAGGGAGCTGGAGTTGCAGCCTGATTCTAACCTTATTCTTCCCATAACACACACTACAACAGCAGTCAGCGATGGTAATTTACCAGAAGCAGCTGAAGATTTTTCTCAGTACCAACAAAAGCAAGATTCAGACATTAAACAAGTTGAACACAAGCCAATACAAAGACATCTAACCAGTGTAAGAAATAAACCTGACAGTACACTTTCACAGCATCAAGGTAATATTTGTGAAGATTTATGTGCCAGTCATGGTCCAATGAGCTTAAGGGAGCTGGAGTTGCAGCCTGATTCTAACCTTATTCTTCCCATAACACACACTACAACAGCAGTCAGCGATGGTAATTTACCAGAAGCAGCTGAAGATTTTTCTCAGTACCAACAAAAGCAAGATTCAGACATTAAACAAGTTGAACACAAGCCAATACAAAGACATCTAACCAGTGTAAGAAATAAACCTGACAGTACACTTTCACAGCATCAA
Peptide sequence:
MSLRELELQPDSNLILPITHTTTAVSDGNLPEAAEDFSQYQQKQDSDIKQVEHKPIQRHLTSVRNKPDSTLSQHQGNICEDLCASHGPMSLRELELQPDSNLILPITHTTTAVSDGNLPEAAEDFSQYQQKQDSDIKQVEHKPIQRHLTSVRNKPDSTLSQHQ
IRESfinder result
IRESfinder score
0.787523091
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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