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mmu_circGrk3_383
Basic information of circular RNA
PanCircBase ID:
mmu_circGrk3_383
mm39_Chr. Position ID:
chr5|113103029|113117135|-
Gene name:
Grk3
Transcript:
ENSMUST00000065167.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
8,7,6,5,4
Exon/intron offsets:
0,2151,6423,11748,14004
Genomic length:
14106
Exon/intron sizes in nt:
92,52,62,75,102
Flanking exon/introns:
chr5:113101791-113103029|chr5:113117135-113121372
Splice length:
383
Other database IDs:
circBase: hsa_circ_0116320, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_36180
Human Ortholog IDs:
Mature spliced Sequence:
ATAAAAGAATATGAGAAGCTGGACAACGAAGAGGATAGGCTACGCCGGAGCCGGCAGATGTACGACGCCTACATCATGAGGGAGCTCCTATCCAGCACACACCAATTCTCAAAGCAAGCTGTAGAACATGTCCAGAGCCATCTCTCCAAGAAACAGGTGACGGCTACACTTTTCCAGCCATACATAGAAGAAATCTGTGAAAGCCTTCGTGGGGATATTTTCCAAAAGTTTATGGAAAGCGATAAATTCACTAGATTCTGTCAGTGGAAGAACGTGGAGTTGAATATTCACCTGAGCATGAACGACTTCAGTGTGCACAGGATCATCGGCCGAGGAGGGTTTGGGGAAGTTTATGGCTGCAGGAAAGCAGACACCGGTAAAAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGTGCACAGGATCATCGG
60.11
TGTAGGCGTCGTACATCTGC
59.9
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGTGCACAGGATCATCGG
60.11
GTGTGCTGGATAGGAGCTCC
59.89
174
PCR template sequence:
ATATTCACCTGAGCATGAACGACTTCAGTGTGCACAGGATCATCGGCCGAGGAGGGTTTGGGGAAGTTTATGGCTGCAGGAAAGCAGACACCGGTAAAATATAAAAGAATATGAGAAGCTGGACAACGAAGAGGATAGGCTACGCCGGAGCCGGCAGATGTACGACGCCTACATCATGAGGGAGCTCCTATCCAGCACAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-433-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
ACACCGGTAAAATATAAAAGAATATG
siRNA sets
TATTCTTTTATATTTTACC, ATTCTTTTATATTTTACCG, TTCTTTTATATTTTACCGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGRK3_383_ORF_1
0.8655
0.153851104
0.344999282
330
ORF sequence:
ATGTACGACGCCTACATCATGAGGGAGCTCCTATCCAGCACACACCAATTCTCAAAGCAAGCTGTAGAACATGTCCAGAGCCATCTCTCCAAGAAACAGGTGACGGCTACACTTTTCCAGCCATACATAGAAGAAATCTGTGAAAGCCTTCGTGGGGATATTTTCCAAAAGTTTATGGAAAGCGATAAATTCACTAGATTCTGTCAGTGGAAGAACGTGGAGTTGAATATTCACCTGAGCATGAACGACTTCAGTGTGCACAGGATCATCGGCCGAGGAGGGTTTGGGGAAGTTTATGGCTGCAGGAAAGCAGACACCGGTAAAATATAA
Peptide sequence:
MYDAYIMRELLSSTHQFSKQAVEHVQSHLSKKQVTATLFQPYIEEICESLRGDIFQKFMESDKFTRFCQWKNVELNIHLSMNDFSVHRIIGRGGFGEVYGCRKADTGKI
IRESfinder result
IRESfinder score
0.347882745
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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