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mmu_circGga2_299
Basic information of circular RNA
PanCircBase ID:
mmu_circGga2_299
mm39_Chr. Position ID:
chr7|121606479|121609981|-
Gene name:
Gga2
Transcript:
ENSMUST00000124566.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,1074,3426
Genomic length:
3502
Exon/intron sizes in nt:
124,99,76
Flanking exon/introns:
chr7:121603210-121606479|chr7:121609981-121611371
Splice length:
299
Other database IDs:
CIRCpedia: MMU_CIRCpedia_5678, circAtlas: mmu-Gga2_0002
circBase: hsa_circ_0038601, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_351507
Human Ortholog IDs:
Mature spliced Sequence:
CCCGACACATGCACCCTGGCTACTGGCCCACAAGATTCAGTCTCCACAGGAGAAGGAAGCCCTTTATGCCCTGACGGTGCTGGAGATATGCATGAACCACTGTGGGGAGAAGTTCCACAGTGAAGTGGCCAAGTTCCGCTTCCTGAACGAGCTGATCAAAGTATTGTCCCCAAAGTACCTAGGGGCCTGGGCTACGGAGAAGGTTAAAGGAAGAGTTATTGAAATCCTCTTTAGCTGGACCGTCTGGTTTCCGGAAGACATCAAGATCCGAGATGCTTATCAGATGCTGAAGAAGCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGTCTGGTTTCCGGAAGACA
59.97
GCATATCTCCAGCACCGTCA
59.9
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGTCTGGTTTCCGGAAGACA
59.97
TGCATATCTCCAGCACCGTC
59.9
151
PCR template sequence:
AAGGTTAAAGGAAGAGTTATTGAAATCCTCTTTAGCTGGACCGTCTGGTTTCCGGAAGACATCAAGATCCGAGATGCTTATCAGATGCTGAAGAAGCAAGCCCGACACATGCACCCTGGCTACTGGCCCACAAGATTCAGTCTCCACAGGAGAAGGAAGCCCTTTATGCCCTGACGGTGCTGGAGATATGCATGAACCAC
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(2)
siRNAs for circular RNA silencing
Junction sequence
CTGAAGAAGCAAGCCCGACACATGCA
siRNA sets
ATGTGTCGGGCTTGCTTCT, TGTCGGGCTTGCTTCTTCA, CATGTGTCGGGCTTGCTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGGA2_299_ORF_1
1.137
0.287666809
0.517111267
282
ORF sequence:
ATGAACCACTGTGGGGAGAAGTTCCACAGTGAAGTGGCCAAGTTCCGCTTCCTGAACGAGCTGATCAAAGTATTGTCCCCAAAGTACCTAGGGGCCTGGGCTACGGAGAAGGTTAAAGGAAGAGTTATTGAAATCCTCTTTAGCTGGACCGTCTGGTTTCCGGAAGACATCAAGATCCGAGATGCTTATCAGATGCTGAAGAAGCAAGCCCGACACATGCACCCTGGCTACTGGCCCACAAGATTCAGTCTCCACAGGAGAAGGAAGCCCTTTATGCCCTGA
Peptide sequence:
MNHCGEKFHSEVAKFRFLNELIKVLSPKYLGAWATEKVKGRVIEILFSWTVWFPEDIKIRDAYQMLKKQARHMHPGYWPTRFSLHRRRKPFMP
IRESfinder result
IRESfinder score
0.398503302
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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