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mmu_circRab3gap2_611
Basic information of circular RNA
PanCircBase ID:
mmu_circRab3gap2_611
mm39_Chr. Position ID:
chr1|184994875|184999476|+
Gene name:
Rab3gap2
Transcript:
ENSMUST00000194740.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
23,24,25,26
Exon/intron offsets:
0,952,4222,4494
Genomic length:
4601
Exon/intron sizes in nt:
1,61,22,91,14,107
Flanking exon/introns:
chr1:184993632-184994875|chr1:184999476-185003630
Splice length:
611
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TGGCCATCGATGAGACGTGGGATTCTCAGTCTGTGTCCCCCTGGTGGCAGCAGATGCGCATGGCCTGCATCCAGTCAGAGAACAGCGGCGCTGCCCTGCTGTCTGCACATGTGGGGCATTCTGTGGCCGCACAGATGTCCAGCGGTGCTACAGATAAGAAATTTTCCCAGATGGTGTTGGATGCAGATGCCGAAGCCCTCACGGACTCCTGGGAAGCTCTCTCTCTGGACACGGAGTACTGGAAGCTCCTGCTGAGACAGCTGGAGGACTGCCTCATACTCCAGACTCTGCTGCATAGCAAATTGAGCCCCCCAGCCGCCAAAGCACCATCTCTGCAGTCGGAGCCACTGCCAAGGCTTTCTGTTAAAAAGCTGTTAGAAGGGGGGAAAGGTGGTATTGCAGACAGTGTAGCCAAGTGGATATTTAAACAGGACCTCAGCCCTGAATTGTTGAAATGTGCCAACAAAGAGAGAGATGTAGAAAATCCAGACGAACCCAGAGAAGACTTGCTCCACCTGGCCTACGAGCAGTTCCCTTGTAGCCTTGAGCTTGATGTGCTGCACGCCCACTGCTGCTGGGAGTATGTGGTTCAGTGGAACAAAGACCCGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACGAGCAGTTCCCTTGTAGC
60.04
TTCTCTGACTGGATGCAGGC
59.75
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTGAGCTTGATGTGCTGC
59.83
TTCTCTGACTGGATGCAGGC
59.75
152
PCR template sequence:
CCACCTGGCCTACGAGCAGTTCCCTTGTAGCCTTGAGCTTGATGTGCTGCACGCCCACTGCTGCTGGGAGTATGTGGTTCAGTGGAACAAAGACCCGGAGTGGCCATCGATGAGACGTGGGATTCTCAGTCTGTGTCCCCCTGGTGGCAGCAGATGCGCATGGCCTGCATCCAGTCAGAGAACAGCGGCGCTGCCCTGCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-680(2), mmu-miR-221-3p(1), mmu-miR-34a-5p(1), mmu-miR-15b-5p(1), mmu-miR-96-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAAGACCCGGAGTGGCCATCGATGA
siRNA sets
TCATCGATGGCCACTCCGG, ATCGATGGCCACTCCGGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRAB3GAP2_611_ORF_1
0.6849
0.129723926
0.91676837
813
ORF sequence:
ATGCGCATGGCCTGCATCCAGTCAGAGAACAGCGGCGCTGCCCTGCTGTCTGCACATGTGGGGCATTCTGTGGCCGCACAGATGTCCAGCGGTGCTACAGATAAGAAATTTTCCCAGATGGTGTTGGATGCAGATGCCGAAGCCCTCACGGACTCCTGGGAAGCTCTCTCTCTGGACACGGAGTACTGGAAGCTCCTGCTGAGACAGCTGGAGGACTGCCTCATACTCCAGACTCTGCTGCATAGCAAATTGAGCCCCCCAGCCGCCAAAGCACCATCTCTGCAGTCGGAGCCACTGCCAAGGCTTTCTGTTAAAAAGCTGTTAGAAGGGGGGAAAGGTGGTATTGCAGACAGTGTAGCCAAGTGGATATTTAAACAGGACCTCAGCCCTGAATTGTTGAAATGTGCCAACAAAGAGAGAGATGTAGAAAATCCAGACGAACCCAGAGAAGACTTGCTCCACCTGGCCTACGAGCAGTTCCCTTGTAGCCTTGAGCTTGATGTGCTGCACGCCCACTGCTGCTGGGAGTATGTGGTTCAGTGGAACAAAGACCCGGAGTGGCCATCGATGAGACGTGGGATTCTCAGTCTGTGTCCCCCTGGTGGCAGCAGATGCGCATGGCCTGCATCCAGTCAGAGAACAGCGGCGCTGCCCTGCTGTCTGCACATGTGGGGCATTCTGTGGCCGCACAGATGTCCAGCGGTGCTACAGATAAGAAATTTTCCCAGATGGTGTTGGATGCAGATGCCGAAGCCCTCACGGACTCCTGGGAAGCTCTCTCTCTGGACACGGAGTACTGGAAGCTCCTGCTGA
Peptide sequence:
MRMACIQSENSGAALLSAHVGHSVAAQMSSGATDKKFSQMVLDADAEALTDSWEALSLDTEYWKLLLRQLEDCLILQTLLHSKLSPPAAKAPSLQSEPLPRLSVKKLLEGGKGGIADSVAKWIFKQDLSPELLKCANKERDVENPDEPREDLLHLAYEQFPCSLELDVLHAHCCWEYVVQWNKDPEWPSMRRGILSLCPPGGSRCAWPASSQRTAALPCCLHMWGILWPHRCPAVLQIRNFPRWCWMQMPKPSRTPGKLSLWTRSTGSSC
IRESfinder result
IRESfinder score
0.453053644
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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