top of page
mmu_circArfgap1_134
Basic information of circular RNA
PanCircBase ID:
mmu_circArfgap1_134
mm39_Chr. Position ID:
chr2|180620963|180622267|+
Gene name:
Arfgap1
Transcript:
ENSMUST00000108862.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
10,11
Exon/intron offsets:
0,1227
Genomic length:
1304
Exon/intron sizes in nt:
57,77
Flanking exon/introns:
chr2:180619145-180620963|chr2:180622267-180622829
Splice length:
134
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GCTTCGGAGTTGGGCCACAGCCTGAATGAGAATGTTCTCAAGCCTGCACAGGAGAAGGTCCAGGGAGTTGGCAGTAAGGGATGGCGTGATGTCACTACTTTCTTCTCTGGGAAAGCCGAAGACTCTTCAGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGTAAGGGATGGCGTGAT
60.18
CTGGACCTTCTCCTGTGCAG
60.04
127
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGGATGGCGTGATGTCAC
60.39
CTGGACCTTCTCCTGTGCAG
60.04
122
PCR template sequence:
TTGGCAGTAAGGGATGGCGTGATGTCACTACTTTCTTCTCTGGGAAAGCCGAAGACTCTTCAGACAGGCTTCGGAGTTGGGCCACAGCCTGAATGAGAATGTTCTCAAGCCTGCACAGGAGAAGGTCCAGGGAG
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-207(1)
siRNAs for circular RNA silencing
Junction sequence
ACTCTTCAGACAGGCTTCGGAGTTGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARFGAP1_134_ORF_1
0.8332
-0.083809366
0.045358408
138
ORF sequence:
ATGAGAATGTTCTCAAGCCTGCACAGGAGAAGGTCCAGGGAGTTGGCAGTAAGGGATGGCGTGATGTCACTACTTTCTTCTCTGGGAAAGCCGAAGACTCTTCAGACAGGCTTCGGAGTTGGGCCACAGCCTGAATGA
Peptide sequence:
MRMFSSLHRRRSRELAVRDGVMSLLSSLGKPKTLQTGFGVGPQPE
IRESfinder result
IRESfinder score
0.238051998
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page