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mmu_circGabrg2_662
Basic information of circular RNA
PanCircBase ID:
mmu_circGabrg2_662
mm39_Chr. Position ID:
chr11|41858360|41867513|-
Gene name:
Gabrg2
Transcript:
ENSMUST00000070725.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,1262,4177,7293,9001
Genomic length:
9153
Exon/intron sizes in nt:
13,88,32,21,68,152
Flanking exon/introns:
chr11:41811377-41858360|chr11:41867513-41891053
Splice length:
662
Other database IDs:
circBase: mmu_circ_0003026, CIRCpedia: MMU_CIRCpedia_19766, circAtlas: mmu-Gabrg2_0001
circBase: hsa_circ_0128491, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_123743
Human Ortholog IDs:
Mature spliced Sequence:
CTTCACAAGCCAAAAGTCAGATGATGACTATGAAGATTACGCTTCTAATAAAACATGGGTGTTGACTCCAAAAGTTCCAGAGGGTGATGTCACTGTCATCTTAAACAACCTGCTGGAAGGGTATGACAACAAACTTCGACCTGACATCGGAGTGAAACCAACATTAATTCATACAGATATGTATGTGAACAGCATTGGTCCAGTGAATGCTATCAATATGGAATATACAATTGATATTTTTTTTGCCCAAACCTGGTATGACAGACGTTTGAAATTTAACAGTACCATTAAAGTTCTCCGGTTGAATAGCAATATGGTGGGGAAAATCTGGATTCCAGACACTTTCTTCAGGAACTCCAAAAAGGCTGATGCTCACTGGATCACCACTCCCAACAGGATGCTGAGAATTTGGAATGATGGTCGAGTTCTCTACACCTTAAGGCTAACAATTGATGCTGAGTGCCAGTTGCAATTACACAACTTCCCAATGGATGAACACTCCTGCCCCCTGGAGTTCTCCAGTTATGGATATCCTCGTGAAGAAATTGTTTATCAATGGAAGCGCAGTTCTGTTGAAGTGGGTGACACAAGATCATGGAGGCTGTATCAATTTTCCTTTGTTGGATTGAGGAATACAACTGAAGTAGTGAAGACAACTTCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACACAAGATCATGGAGGCTGT
59.37
GTGACATCACCCTCTGGAACT
59.37
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACACAAGATCATGGAGGCT
59.09
GTGACATCACCCTCTGGAACT
59.37
173
PCR template sequence:
CGCAGTTCTGTTGAAGTGGGTGACACAAGATCATGGAGGCTGTATCAATTTTCCTTTGTTGGATTGAGGAATACAACTGAAGTAGTGAAGACAACTTCTGCTTCACAAGCCAAAAGTCAGATGATGACTATGAAGATTACGCTTCTAATAAAACATGGGTGTTGACTCCAAAAGTTCCAGAGGGTGATGTCACTGTCATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-382-3p(1), mmu-miR-96-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGACAACTTCTGCTTCACAAGCCAA
siRNA sets
CTTGTGAAGCAGAAGTTGT, TTGTGAAGCAGAAGTTGTC, TGTGAAGCAGAAGTTGTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGABRG2_662_ORF_1
0.6665
0.004730691
0.486622628
549
ORF sequence:
ATGTATGTGAACAGCATTGGTCCAGTGAATGCTATCAATATGGAATATACAATTGATATTTTTTTTGCCCAAACCTGGTATGACAGACGTTTGAAATTTAACAGTACCATTAAAGTTCTCCGGTTGAATAGCAATATGGTGGGGAAAATCTGGATTCCAGACACTTTCTTCAGGAACTCCAAAAAGGCTGATGCTCACTGGATCACCACTCCCAACAGGATGCTGAGAATTTGGAATGATGGTCGAGTTCTCTACACCTTAAGGCTAACAATTGATGCTGAGTGCCAGTTGCAATTACACAACTTCCCAATGGATGAACACTCCTGCCCCCTGGAGTTCTCCAGTTATGGATATCCTCGTGAAGAAATTGTTTATCAATGGAAGCGCAGTTCTGTTGAAGTGGGTGACACAAGATCATGGAGGCTGTATCAATTTTCCTTTGTTGGATTGAGGAATACAACTGAAGTAGTGAAGACAACTTCTGCTTCACAAGCCAAAAGTCAGATGATGACTATGAAGATTACGCTTCTAATAAAACATGGGTGTTGA
Peptide sequence:
MYVNSIGPVNAINMEYTIDIFFAQTWYDRRLKFNSTIKVLRLNSNMVGKIWIPDTFFRNSKKADAHWITTPNRMLRIWNDGRVLYTLRLTIDAECQLQLHNFPMDEHSCPLEFSSYGYPREEIVYQWKRSSVEVGDTRSWRLYQFSFVGLRNTTEVVKTTSASQAKSQMMTMKITLLIKHGC
IRESfinder result
IRESfinder score
0.591328499
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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