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mmu_circArsg_883
Basic information of circular RNA
PanCircBase ID:
mmu_circArsg_883
mm39_Chr. Position ID:
chr11|109380593|109381476|+
Gene name:
Arsg
Transcript:
ENSMUST00000020928.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
883
Exon/intron sizes in nt:
883
Flanking exon/introns:
chr11:109376583-109380593|chr11:109381476-109408067
Splice length:
883
Other database IDs:
CIRCpedia: MMU_CIRCpedia_211764, circAtlas: mmu-Arsg_0003
Human Ortholog IDs:
Mature spliced Sequence:
GGGGAAGAAACCGATGAGGCAGTTGAACATCTGAAGAAGGAAAACATCTGTTGGCATGGAAAAGTGATTCTTTTCCCAAGCTACTGAGTAAAACACCACAGACCTGGCTGTTCCAACTCTGGTTTCTTGTCAGATTTTGTTCCTCCAGGAAACCTTACAGAAACCTCTACCATCTGGAACTCAGAAACTCATCTCAGGGCTGACTGTGGCTTCTAGAACATGCAGGTGTTCTGCAGATGTGAGACTGTATCCCGCAGTCACCAGATGAAATCCTAAGCAGATGCAAGGCTTGCTTTGTGGCCTTAGCTCCCCTGAGTGCAAAGGGCCACTTCTCTGCTAAGTGGCCAAGAGTGGATATTGACATTGATGTCTGAATGCTGCACCCAGCCAGTCATCTTATTAAGCTGCGATGAGAAGACATCTTGAGGGGACCAACCCAACTTAGGGGTGACACATTCCTGACTTTCTTGGATTAGGATTCCACATGGGGACCTTGTGTCTGTAGCCCTGTAGCCATTACTAACTCCAGTGTATTCTTGACAACTGGACTCCTTGGAGACTTCCTGCACTGAAAGTGAACAAAGAGAAAACTCTAAAATTCCAGAGATTCACAGTGGTGCTCGGTTATCATTTATCCAAGACAACGGGAGTCTTCGTGTCTTACAATGGGCTGGCTCTTTCTAAAGGTTTTGTTGGTTGGCATGGCTTTTTCTGGATTTTTCTACCCTCTCGTGGATTTCTCTATCAGTGGGAAAACAAGAGCCCCCCAACCAAACATCGTGATCATTTTGGCTGATGACATGGGATGGGGTGATCTGGGAGCAAACTGGGCAGAAACAAAGGACACCACCAATCTTGACAAGATGGCTTCCGAAGGAATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATGGGATGGGGTGATCTGG
59.89
TCCATGCCAACAGATGTTTTCC
59.44
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATGGGATGGGGTGATCTGG
59.89
CCATGCCAACAGATGTTTTCCT
59.44
143
PCR template sequence:
TCATTTTGGCTGATGACATGGGATGGGGTGATCTGGGAGCAAACTGGGCAGAAACAAAGGACACCACCAATCTTGACAAGATGGCTTCCGAAGGAATGAGGGGGAAGAAACCGATGAGGCAGTTGAACATCTGAAGAAGGAAAACATCTGTTGGCATGGAAAAGTGATTCTTTTCCCAAGCTACTGAGTAAAACACCACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-328-3p(1), mmu-miR-351-5p(1), mmu-miR-425-5p(1), mmu-miR-107-3p(1), mmu-miR-452-3p(1), mmu-miR-3065-5p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCGAAGGAATGAGGGGGAAGAAACCG
siRNA sets
TTTCTTCCCCCTCATTCCT, GTTTCTTCCCCCTCATTCC, TTCCCCCTCATTCCTTCGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARSG_883_ORF_1
1.0505
0.094040593
0.244564064
252
ORF sequence:
ATGGGCTGGCTCTTTCTAAAGGTTTTGTTGGTTGGCATGGCTTTTTCTGGATTTTTCTACCCTCTCGTGGATTTCTCTATCAGTGGGAAAACAAGAGCCCCCCAACCAAACATCGTGATCATTTTGGCTGATGACATGGGATGGGGTGATCTGGGAGCAAACTGGGCAGAAACAAAGGACACCACCAATCTTGACAAGATGGCTTCCGAAGGAATGAGGGGGAAGAAACCGATGAGGCAGTTGAACATCTGA
Peptide sequence:
MGWLFLKVLLVGMAFSGFFYPLVDFSISGKTRAPQPNIVIILADDMGWGDLGANWAETKDTTNLDKMASEGMRGKKPMRQLNI
IRESfinder result
IRESfinder score
0.677694669
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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