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mmu_circSpg7_339
Basic information of circular RNA
PanCircBase ID:
mmu_circSpg7_339
mm39_Chr. Position ID:
chr8|123814066|123816973|+
Gene name:
Spg7
Transcript:
ENSMUST00000125975.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
10,11,12
Exon/intron offsets:
0,1617,2796
Genomic length:
2907
Exon/intron sizes in nt:
12,51,03,111
Flanking exon/introns:
chr8:123807549-123814066|chr8:123816973-123818373
Splice length:
339
Other database IDs:
circBase: hsa_circ_0004945, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_19120
Human Ortholog IDs:
Mature spliced Sequence:
GAATGGGCACCACAGACCATGTCATCGTCTTGGCATCCACCAATCGAGCTGATGTTCTGGACAATGCTCTGATGAGGCCTGGGCGGCTCGACAGGCATGTCTTCATTGATCTTCCCACGCTCCAGGAGAGGCGGGAGATTTTCGAGCAGCACCTGAAAGGCCTGAAGTTGACCCAGCCCAGCAGTTTTTACTCCCAGCGGCTGGCAGAGCTGACACCTGGATTCAGTGGCGCCGACATCGCCAACATCTGCAACGAGGCCGCTCTGCACGCTGCACGCGAGGGGCACACGTCCGTGCACACGTTCAACTTTGAGTATGCCGTGGAGCGCGTCATTGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAACATCTGCAACGAGGC
59.5
GGTGGATGCCAAGACGATGA
60.11
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCAACATCTGCAACGAGG
59.5
GGTGGATGCCAAGACGATGA
60.11
141
PCR template sequence:
GCCAACATCTGCAACGAGGCCGCTCTGCACGCTGCACGCGAGGGGCACACGTCCGTGCACACGTTCAACTTTGAGTATGCCGTGGAGCGCGTCATTGCTGGAATGGGCACCACAGACCATGTCATCGTCTTGGCATCCACCAATCGAGCTGATGTTCTGGACAATGCTCTGATGAGGCCTGGGCGGCTCGACAGGCATGT
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-1187(1)
siRNAs for circular RNA silencing
Junction sequence
CGCGTCATTGCTGGAATGGGCACCAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSPG7_339_ORF_1
1.3146
0.50057996
0.983752044
675
ORF sequence:
ATGGGCACCACAGACCATGTCATCGTCTTGGCATCCACCAATCGAGCTGATGTTCTGGACAATGCTCTGATGAGGCCTGGGCGGCTCGACAGGCATGTCTTCATTGATCTTCCCACGCTCCAGGAGAGGCGGGAGATTTTCGAGCAGCACCTGAAAGGCCTGAAGTTGACCCAGCCCAGCAGTTTTTACTCCCAGCGGCTGGCAGAGCTGACACCTGGATTCAGTGGCGCCGACATCGCCAACATCTGCAACGAGGCCGCTCTGCACGCTGCACGCGAGGGGCACACGTCCGTGCACACGTTCAACTTTGAGTATGCCGTGGAGCGCGTCATTGCTGGAATGGGCACCACAGACCATGTCATCGTCTTGGCATCCACCAATCGAGCTGATGTTCTGGACAATGCTCTGATGAGGCCTGGGCGGCTCGACAGGCATGTCTTCATTGATCTTCCCACGCTCCAGGAGAGGCGGGAGATTTTCGAGCAGCACCTGAAAGGCCTGAAGTTGACCCAGCCCAGCAGTTTTTACTCCCAGCGGCTGGCAGAGCTGACACCTGGATTCAGTGGCGCCGACATCGCCAACATCTGCAACGAGGCCGCTCTGCACGCTGCACGCGAGGGGCACACGTCCGTGCACACGTTCAACTTTGAGTATGCCGTGGAGCGCGTCATTGCT
Peptide sequence:
MGTTDHVIVLASTNRADVLDNALMRPGRLDRHVFIDLPTLQERREIFEQHLKGLKLTQPSSFYSQRLAELTPGFSGADIANICNEAALHAAREGHTSVHTFNFEYAVERVIAGMGTTDHVIVLASTNRADVLDNALMRPGRLDRHVFIDLPTLQERREIFEQHLKGLKLTQPSSFYSQRLAELTPGFSGADIANICNEAALHAAREGHTSVHTFNFEYAVERVIA
IRESfinder result
IRESfinder score
0.294484021
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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