top of page
mmu_circRims2_794
Basic information of circular RNA
PanCircBase ID:
mmu_circRims2_794
mm39_Chr. Position ID:
chr15|39335729|39374770|+
Gene name:
Rims2
Transcript:
ENSMUST00000082054.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
13,14,15,16,17,18
Exon/intron offsets:
0,4046,6223,34632,37311,38930
Genomic length:
39041
Exon/intron sizes in nt:
131,172,154,69,157,111
Flanking exon/introns:
chr15:39326006-39335729|chr15:39374770-39399267
Splice length:
794
Other database IDs:
CIRCpedia: MMU_CIRCpedia_19159
circBase: hsa_circ_0135423, circAtlas: hsa-RIMS2_0033, CIRCpedia: HSA_CIRCpedia_126017
Human Ortholog IDs:
Mature spliced Sequence:
ATAAAACTATGGTTTGACAAGGTTGGTCACCAGTTGATAGTTACAATTTTGGGAGCAAAGGATCTCCCTTCCAGGGAAGATGGGAGGCCAAGGAATCCTTATGTTAAGATTTACTTCCTTCCAGATAGAAGTGATAAAAATAAGAGAAGAACAAAAACAGTCAAGAAAACTTTGGAACCCAAATGGAACCAGACTTTCATTTATTCTCCTGTCCACCGAAGAGAATTCCGTGAACGAATGCTGGAAATTACCCTTTGGGATCAAGCTAGAGTTCGAGAAGAAGAGAGCGAATTCTTAGGAGAGATTTTAATTGAATTGGAAACAGCTTTGCTAGATGATGAGCCGCACTGGTATAAGCTGCAGACCCATGATGTCTCCTCATTGCCACTCCCTCGCCCTTCCCCATATCTGCCCCGGAGGCAGCTCCATGGAGAGAGCCCAACGCGCAGGCTGCAAAGGTCGAAGAGAATAAGTGACAGTGAAGTGTCTGACTACGACTGCGAGGATGGCGTGGGAGTAGTGTCAGATTATCGACACAATGGCCGCGATCTTCAAAGCTCCACGTTGTCGGTGCCAGAACAAGTCATGTCATCAAATCATTGCTCACCATCAGGGTCTCCTCATCGAGTAGATGTTATAGGAAGGACAAGGTCATGGTCGCCTAGTGCCCCTCCTCCTCAAAGGAATGTGGAACAGGGGCACCGAGGGACACGTGCTACTGGCCATTACAACACAATTAGCCGAATGGATAGACACCGTGTCATGGATGACCACTACTCTTCAGATAGAGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCGAATGGATAGACACCGT
59.9
GGATTCCTTGGCCTCCCATC
60.18
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCGAATGGATAGACACCG
59.61
GGATTCCTTGGCCTCCCATC
60.18
154
PCR template sequence:
AGGGGCACCGAGGGACACGTGCTACTGGCCATTACAACACAATTAGCCGAATGGATAGACACCGTGTCATGGATGACCACTACTCTTCAGATAGAGACAGATAAAACTATGGTTTGACAAGGTTGGTCACCAGTTGATAGTTACAATTTTGGGAGCAAAGGATCTCCCTTCCAGGGAAGATGGGAGGCCAAGGAATCCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-150-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-425-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGATAGAGACAGATAAAACTATGGT
siRNA sets
TTTTATCTGTCTCTATCTG, GTTTTATCTGTCTCTATCT, AGTTTTATCTGTCTCTATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRIMS2_794_ORF_1
0.7423
0.14378137
0.67620447
561
ORF sequence:
ATGCTGGAAATTACCCTTTGGGATCAAGCTAGAGTTCGAGAAGAAGAGAGCGAATTCTTAGGAGAGATTTTAATTGAATTGGAAACAGCTTTGCTAGATGATGAGCCGCACTGGTATAAGCTGCAGACCCATGATGTCTCCTCATTGCCACTCCCTCGCCCTTCCCCATATCTGCCCCGGAGGCAGCTCCATGGAGAGAGCCCAACGCGCAGGCTGCAAAGGTCGAAGAGAATAAGTGACAGTGAAGTGTCTGACTACGACTGCGAGGATGGCGTGGGAGTAGTGTCAGATTATCGACACAATGGCCGCGATCTTCAAAGCTCCACGTTGTCGGTGCCAGAACAAGTCATGTCATCAAATCATTGCTCACCATCAGGGTCTCCTCATCGAGTAGATGTTATAGGAAGGACAAGGTCATGGTCGCCTAGTGCCCCTCCTCCTCAAAGGAATGTGGAACAGGGGCACCGAGGGACACGTGCTACTGGCCATTACAACACAATTAGCCGAATGGATAGACACCGTGTCATGGATGACCACTACTCTTCAGATAGAGACAGATAA
Peptide sequence:
MLEITLWDQARVREEESEFLGEILIELETALLDDEPHWYKLQTHDVSSLPLPRPSPYLPRRQLHGESPTRRLQRSKRISDSEVSDYDCEDGVGVVSDYRHNGRDLQSSTLSVPEQVMSSNHCSPSGSPHRVDVIGRTRSWSPSAPPPQRNVEQGHRGTRATGHYNTISRMDRHRVMDDHYSSDRDR
IRESfinder result
IRESfinder score
0.473186006
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page