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mmu_circArhgap35_210
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgap35_210
mm39_Chr. Position ID:
chr7|16245117|16246410|-
Gene name:
Arhgap35
Transcript:
ENSMUST00000075845.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,4
Exon/intron offsets:
0,1215
Genomic length:
1293
Exon/intron sizes in nt:
132,78
Flanking exon/introns:
chr7:16232614-16245117|chr7:16246410-16282987
Splice length:
210
Other database IDs:
circBase: mmu_circ_0014037, CIRCpedia: MMU_CIRCpedia_11502, circAtlas: mmu-Arhgap35_0005
CIRCpedia: HSA_CIRCpedia_26264
Human Ortholog IDs:
Mature spliced Sequence:
GACTAAGCACTGAAGGCATCTACCGGGTCAGTGGAAACAAGTCAGAAATGGAAAGTTTGCAAAGACAGTTTGATCAAGACCACAATCTGGACCTGGCAGAGAAAGACTTCACTGTGAACACTGTGGCAGGGGCCATGAAGAGTTTTTTCTCAGAGCTACCAGACCCCCTGGTACCATACAGCATGCAGATTGACTTGGTGGAAGCTCACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCAGAGCTACCAGACCCC
60.03
TCTGCCAGGTCCAGATTGTG
59.67
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGTGAACACTGTGGCAGG
60.46
CTTGTTTCCACTGACCCGGT
60.18
141
PCR template sequence:
ACTGTGAACACTGTGGCAGGGGCCATGAAGAGTTTTTTCTCAGAGCTACCAGACCCCCTGGTACCATACAGCATGCAGATTGACTTGGTGGAAGCTCACAGACTAAGCACTGAAGGCATCTACCGGGTCAGTGGAAACAAGTCAGAAATGGAAAGTTTGCAAAGACAGTTTGATCAAGACCACAATCTGGACCTGGCAGA
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-27b-3p(1), mmu-miR-128-3p(1), mmu-miR-532-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGGAAGCTCACAGACTAAGCACTGA
siRNA sets
TCAGTGCTTAGTCTGTGAG,TTAGTCTGTGAGCTTCCAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGAP35_210_ORF_1
1.1367
0.33264462
0.712065071
372
ORF sequence:
ATGGAAAGTTTGCAAAGACAGTTTGATCAAGACCACAATCTGGACCTGGCAGAGAAAGACTTCACTGTGAACACTGTGGCAGGGGCCATGAAGAGTTTTTTCTCAGAGCTACCAGACCCCCTGGTACCATACAGCATGCAGATTGACTTGGTGGAAGCTCACAGACTAAGCACTGAAGGCATCTACCGGGTCAGTGGAAACAAGTCAGAAATGGAAAGTTTGCAAAGACAGTTTGATCAAGACCACAATCTGGACCTGGCAGAGAAAGACTTCACTGTGAACACTGTGGCAGGGGCCATGAAGAGTTTTTTCTCAGAGCTACCAGACCCCCTGGTACCATACAGCATGCAGATTGACTTGGTGGAAGCTCAC
Peptide sequence:
MESLQRQFDQDHNLDLAEKDFTVNTVAGAMKSFFSELPDPLVPYSMQIDLVEAHRLSTEGIYRVSGNKSEMESLQRQFDQDHNLDLAEKDFTVNTVAGAMKSFFSELPDPLVPYSMQIDLVEAH
IRESfinder result
IRESfinder score
0.718654052
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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