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mmu_circItgav_220
Basic information of circular RNA
PanCircBase ID:
mmu_circItgav_220
mm39_Chr. Position ID:
chr2|83566856|83578288|+
Gene name:
Itgav
Transcript:
ENSMUST00000141725.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,11340
Genomic length:
11432
Exon/intron sizes in nt:
128,92
Flanking exon/introns:
chr2:83555263-83566856|None
Splice length:
220
Other database IDs:
circAtlas: mmu-Itgav_0012
Human Ortholog IDs:
Mature spliced Sequence:
GATGTTTCTCCTGGTGGGAGCCCCCAAAGCGAACACGACCCAGCCTGGGATTGTAGAAGGAGGGCAAGTTCTCAAATGTGAATGCTCATCCAGCCGCCGGTGCCAGCCCATTGAGTTTGATTCAACAGGCAATCGAGATTATGCCAAAGATGACCCACTGGAGTTTAAGTCCCACCAGTGGTTTGGAGCCTCTGTGAGGTCAAAGCAGGATAAAATCTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCAAAGATGACCCACTGGA
59.96
CCTCCTTCTACAATCCCAGGC
59.86
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCAAAGATGACCCACTGGA
59.96
GCCCTCCTTCTACAATCCCAG
59.86
143
PCR template sequence:
TTCAACAGGCAATCGAGATTATGCCAAAGATGACCCACTGGAGTTTAAGTCCCACCAGTGGTTTGGAGCCTCTGTGAGGTCAAAGCAGGATAAAATCTTGGATGTTTCTCCTGGTGGGAGCCCCCAAAGCGAACACGACCCAGCCTGGGATTGTAGAAGGAGGGCAAGTTCTCAAATGTGAATGCTCATCCAGCCGCCGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
GGATAAAATCTTGGATGTTTCTCCTG
siRNA sets
AACATCCAAGATTTTATCC, AAACATCCAAGATTTTATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCITGAV_220_ORF_1
0.534
0.114301078
0.164081304
300
ORF sequence:
ATGTTTCTCCTGGTGGGAGCCCCCAAAGCGAACACGACCCAGCCTGGGATTGTAGAAGGAGGGCAAGTTCTCAAATGTGAATGCTCATCCAGCCGCCGGTGCCAGCCCATTGAGTTTGATTCAACAGGCAATCGAGATTATGCCAAAGATGACCCACTGGAGTTTAAGTCCCACCAGTGGTTTGGAGCCTCTGTGAGGTCAAAGCAGGATAAAATCTTGGATGTTTCTCCTGGTGGGAGCCCCCAAAGCGAACACGACCCAGCCTGGGATTGTAGAAGGAGGGCAAGTTCTCAAATGTGA
Peptide sequence:
MFLLVGAPKANTTQPGIVEGGQVLKCECSSSRRCQPIEFDSTGNRDYAKDDPLEFKSHQWFGASVRSKQDKILDVSPGGSPQSEHDPAWDCRRRASSQM
IRESfinder result
IRESfinder score
0.398168871
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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