top of page
mmu_circAgfg2_414
Basic information of circular RNA
PanCircBase ID:
mmu_circAgfg2_414
mm39_Chr. Position ID:
chr5|137652024|137653990|-
Gene name:
Agfg2
Transcript:
ENSMUST00000031736.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
10,9,8,7
Exon/intron offsets:
0,1376,1567,1845
Genomic length:
1966
Exon/intron sizes in nt:
129,81,83,121
Flanking exon/introns:
chr5:137650777-137652024|chr5:137653990-137659625
Splice length:
414
Other database IDs:
CIRCpedia: MMU_CIRCpedia_8540, circAtlas: mmu-Agfg2_0002
Human Ortholog IDs:
Mature spliced Sequence:
GAAGTGGCCAGATGTCTGCGTTTGGTGTGGCACCCCTTGCAGCTGCCAGTCAACCCAACAACCTTGCAGATGTGGGCGGCCTCCTGGGTCCCAGGATGGCTGCTGGAGGTCTCCCTGGCAGTGTTTTTGGGATGCCGAGCCAGGTTCCTGCCCTGCAGTCGGCCGTGCCAGGTGTTAGCGGCAGTGGAGGGCTCCCCTTTGGAGCCTACACCAACCCCTTCGCCACCCCTGCCCAAGCCCAGCTGCCTTCTACCAACCCATTCCAACCCAATGGTCTAGCCTCAGGGCCTGGCTTTGGGATGAGCAGTGTTCGGCCTGGCCTTCTCCAGCCAGTGCCACCCTCCGGGGCCTTTGCCAGTCCCTTCTCTGCACCCGTGTTCCCCACACAGGCTGGACTGGCCGACCAGCAGAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGCCAGTCCCTTCTCTGC
60.25
CCCACATCTGCAAGGTTGTTG
60
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGCCAGTCCCTTCTCTGC
60.25
GCCCACATCTGCAAGGTTGT
61.18
141
PCR template sequence:
CCTGGCCTTCTCCAGCCAGTGCCACCCTCCGGGGCCTTTGCCAGTCCCTTCTCTGCACCCGTGTTCCCCACACAGGCTGGACTGGCCGACCAGCAGAATGGAAGTGGCCAGATGTCTGCGTTTGGTGTGGCACCCCTTGCAGCTGCCAGTCAACCCAACAACCTTGCAGATGTGGGCGGCCTCCTGGGTCCCAGGATGGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-298-5p(1), mmu-miR-324-5p(1), mmu-miR-149-5p(1), mmu-miR-351-5p(1), mmu-miR-483-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GACCAGCAGAATGGAAGTGGCCAGAT
siRNA sets
ATCTGGCCACTTCCATTCT, CTGGCCACTTCCATTCTGC, TCTGGCCACTTCCATTCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAGFG2_414_ORF_1
1.0228
0.241527899
0.971128325
816
ORF sequence:
ATGTCTGCGTTTGGTGTGGCACCCCTTGCAGCTGCCAGTCAACCCAACAACCTTGCAGATGTGGGCGGCCTCCTGGGTCCCAGGATGGCTGCTGGAGGTCTCCCTGGCAGTGTTTTTGGGATGCCGAGCCAGGTTCCTGCCCTGCAGTCGGCCGTGCCAGGTGTTAGCGGCAGTGGAGGGCTCCCCTTTGGAGCCTACACCAACCCCTTCGCCACCCCTGCCCAAGCCCAGCTGCCTTCTACCAACCCATTCCAACCCAATGGTCTAGCCTCAGGGCCTGGCTTTGGGATGAGCAGTGTTCGGCCTGGCCTTCTCCAGCCAGTGCCACCCTCCGGGGCCTTTGCCAGTCCCTTCTCTGCACCCGTGTTCCCCACACAGGCTGGACTGGCCGACCAGCAGAATGGAAGTGGCCAGATGTCTGCGTTTGGTGTGGCACCCCTTGCAGCTGCCAGTCAACCCAACAACCTTGCAGATGTGGGCGGCCTCCTGGGTCCCAGGATGGCTGCTGGAGGTCTCCCTGGCAGTGTTTTTGGGATGCCGAGCCAGGTTCCTGCCCTGCAGTCGGCCGTGCCAGGTGTTAGCGGCAGTGGAGGGCTCCCCTTTGGAGCCTACACCAACCCCTTCGCCACCCCTGCCCAAGCCCAGCTGCCTTCTACCAACCCATTCCAACCCAATGGTCTAGCCTCAGGGCCTGGCTTTGGGATGAGCAGTGTTCGGCCTGGCCTTCTCCAGCCAGTGCCACCCTCCGGGGCCTTTGCCAGTCCCTTCTCTGCACCCGTGTTCCCCACACAGGCTGGACTGGCCGACCAGCAGAAT
Peptide sequence:
MSAFGVAPLAAASQPNNLADVGGLLGPRMAAGGLPGSVFGMPSQVPALQSAVPGVSGSGGLPFGAYTNPFATPAQAQLPSTNPFQPNGLASGPGFGMSSVRPGLLQPVPPSGAFASPFSAPVFPTQAGLADQQNGSGQMSAFGVAPLAAASQPNNLADVGGLLGPRMAAGGLPGSVFGMPSQVPALQSAVPGVSGSGGLPFGAYTNPFATPAQAQLPSTNPFQPNGLASGPGFGMSSVRPGLLQPVPPSGAFASPFSAPVFPTQAGLADQQN
IRESfinder result
IRESfinder score
0.385648189
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page