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mmu_circGrk3_402
Basic information of circular RNA
PanCircBase ID:
mmu_circGrk3_402
mm39_Chr. Position ID:
chr5|113092783|113103121|-
Gene name:
Grk3
Transcript:
ENSMUST00000065167.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
11,10,9,8
Exon/intron offsets:
0,1669,8908,10246
Genomic length:
10338
Exon/intron sizes in nt:
131,79,100,92
Flanking exon/introns:
chr5:113089593-113092783|chr5:113103121-113105180
Splice length:
402
Other database IDs:
CIRCpedia: MMU_CIRCpedia_3474, circAtlas: mmu-Adrbk2_0014
circBase: hsa_circ_0062655, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_36191
Human Ortholog IDs:
Mature spliced Sequence:
CTGAGCATGAACGACTTCAGTGTGCACAGGATCATCGGCCGAGGAGGGTTTGGGGAAGTTTATGGCTGCAGGAAAGCAGACACCGGTAAAATGTATGCCATGAAGTGCTTAGACAAGAAAAGGGTGAAGATGAAGCAGGGGGAGACTCTGGCTTTGAACGAGAGGATCATGCTGTCTCTCGTTAGCACTGGGGATTGTCCCTTTATTGTCTGCATGACCTACGCCTTCCACACGCCGGACAAACTCTGCTTCATCCTGGACCTGATGAACGGGGGCGACATGCACTACCATCTCTCTCAACACGGGGTGTTTTCTGAGAAGGAGATGCGGTTTTATGCCAGCGAGATCATCCTGGGCCTCGAGCACATGCACACCTGCTTCGTAGTCTACAGAGACCTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGCCAGCGAGATCATCCTG
59.96
TACCGGTGTCTGCTTTCCTG
59.68
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATGCGGTTTTATGCCAGCG
60.59
TACCGGTGTCTGCTTTCCTG
59.68
167
PCR template sequence:
CGGGGTGTTTTCTGAGAAGGAGATGCGGTTTTATGCCAGCGAGATCATCCTGGGCCTCGAGCACATGCACACCTGCTTCGTAGTCTACAGAGACCTGAAGCTGAGCATGAACGACTTCAGTGTGCACAGGATCATCGGCCGAGGAGGGTTTGGGGAAGTTTATGGCTGCAGGAAAGCAGACACCGGTAAAATGTATGCCA
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(1)
siRNAs for circular RNA silencing
Junction sequence
CAGAGACCTGAAGCTGAGCATGAACG
siRNA sets
TTCATGCTCAGCTTCAGGT, GTTCATGCTCAGCTTCAGG, TCATGCTCAGCTTCAGGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGRK3_402_ORF_1
1.206
0.367801993
0.985842337
798
ORF sequence:
ATGAACGACTTCAGTGTGCACAGGATCATCGGCCGAGGAGGGTTTGGGGAAGTTTATGGCTGCAGGAAAGCAGACACCGGTAAAATGTATGCCATGAAGTGCTTAGACAAGAAAAGGGTGAAGATGAAGCAGGGGGAGACTCTGGCTTTGAACGAGAGGATCATGCTGTCTCTCGTTAGCACTGGGGATTGTCCCTTTATTGTCTGCATGACCTACGCCTTCCACACGCCGGACAAACTCTGCTTCATCCTGGACCTGATGAACGGGGGCGACATGCACTACCATCTCTCTCAACACGGGGTGTTTTCTGAGAAGGAGATGCGGTTTTATGCCAGCGAGATCATCCTGGGCCTCGAGCACATGCACACCTGCTTCGTAGTCTACAGAGACCTGAAGCTGAGCATGAACGACTTCAGTGTGCACAGGATCATCGGCCGAGGAGGGTTTGGGGAAGTTTATGGCTGCAGGAAAGCAGACACCGGTAAAATGTATGCCATGAAGTGCTTAGACAAGAAAAGGGTGAAGATGAAGCAGGGGGAGACTCTGGCTTTGAACGAGAGGATCATGCTGTCTCTCGTTAGCACTGGGGATTGTCCCTTTATTGTCTGCATGACCTACGCCTTCCACACGCCGGACAAACTCTGCTTCATCCTGGACCTGATGAACGGGGGCGACATGCACTACCATCTCTCTCAACACGGGGTGTTTTCTGAGAAGGAGATGCGGTTTTATGCCAGCGAGATCATCCTGGGCCTCGAGCACATGCACACCTGCTTCGTAGTCTACAGAGACCTGAAG
Peptide sequence:
MNDFSVHRIIGRGGFGEVYGCRKADTGKMYAMKCLDKKRVKMKQGETLALNERIMLSLVSTGDCPFIVCMTYAFHTPDKLCFILDLMNGGDMHYHLSQHGVFSEKEMRFYASEIILGLEHMHTCFVVYRDLKLSMNDFSVHRIIGRGGFGEVYGCRKADTGKMYAMKCLDKKRVKMKQGETLALNERIMLSLVSTGDCPFIVCMTYAFHTPDKLCFILDLMNGGDMHYHLSQHGVFSEKEMRFYASEIILGLEHMHTCFVVYRDLK
IRESfinder result
IRESfinder score
0.373483819
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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