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mmu_circCog7_511
Basic information of circular RNA
PanCircBase ID:
mmu_circCog7_511
mm39_Chr. Position ID:
chr7|121534880|121543117|-
Gene name:
Cog7
Transcript:
ENSMUST00000205438.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
13,12,11,10
Exon/intron offsets:
0,1296,5512,8120
Genomic length:
8237
Exon/intron sizes in nt:
14,11,87,66,117
Flanking exon/introns:
chr7:121529836-121534880|chr7:121543117-121548967
Splice length:
511
Other database IDs:
CIRCpedia: MMU_CIRCpedia_5648, circAtlas: mmu-Cog7_0007
circAtlas: hsa-COG7_0017, CIRCpedia: HSA_CIRCpedia_81141
Human Ortholog IDs:
Mature spliced Sequence:
GTATGTGTCTCACTTCACCAACGCTCTCCAGTCCATTCGAAAGAAGTGCAAGCTGGATGACATTCCTCCCAACTCCCTGTTTCAGGAAGACTGGACCGCTTTTCAGAATTCGGTCAGGATCATAGCCACCTGTGGAGAGCTCTTGCGCCAGTGTGGGGACTTTGAGCAGCAGCTGGCAAACAGGATCCTGTCCACAGCGGGGAAGTATCTGTCTGACTCCTACAGCCCTCGGAGCCTGGCAGGTTTTCAGGACAGCATCTTGACAGACAAGAAGAGCCCTGCCAAGAACCCATGGCAGGAATATAATTACCTCCAGAAAGATAACCCTGCTGAATATGCCAGTTTAATGGAAATACTTTATACCCTCAAGGAGAAGGGCTCCAGTAACCACAACCTACTGTCTGCGTCACGCACAGCCCTGACCCGGCTGAACCAGCAGGCCCACCAGCTGGCTTTCGACTCGGTCTTCTTGCGCATCAAACAGCAGCTGCTGCTCGTTTCCAGGATGGAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGCTTTCGACTCGGTCTT
60.04
GCGGTCCAGTCTTCCTGAAA
59.97
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCTTTCGACTCGGTCTTC
60.04
GCGGTCCAGTCTTCCTGAAA
59.97
161
PCR template sequence:
CACAGCCCTGACCCGGCTGAACCAGCAGGCCCACCAGCTGGCTTTCGACTCGGTCTTCTTGCGCATCAAACAGCAGCTGCTGCTCGTTTCCAGGATGGATGTATGTGTCTCACTTCACCAACGCTCTCCAGTCCATTCGAAAGAAGTGCAAGCTGGATGACATTCCTCCCAACTCCCTGTTTCAGGAAGACTGGACCGCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-210-3p(1), mmu-miR-15a-5p(1), mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-138-5p(1), mmu-miR-370-3p(1), mmu-miR-340-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCCAGGATGGATGTATGTGTCTCAC
siRNA sets
GAGACACATACATCCATCC,AGACACATACATCCATCCT,GACACATACATCCATCCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCOG7_511_ORF_1
1.0411
0.398158559
0.880685292
513
ORF sequence:
ATGTATGTGTCTCACTTCACCAACGCTCTCCAGTCCATTCGAAAGAAGTGCAAGCTGGATGACATTCCTCCCAACTCCCTGTTTCAGGAAGACTGGACCGCTTTTCAGAATTCGGTCAGGATCATAGCCACCTGTGGAGAGCTCTTGCGCCAGTGTGGGGACTTTGAGCAGCAGCTGGCAAACAGGATCCTGTCCACAGCGGGGAAGTATCTGTCTGACTCCTACAGCCCTCGGAGCCTGGCAGGTTTTCAGGACAGCATCTTGACAGACAAGAAGAGCCCTGCCAAGAACCCATGGCAGGAATATAATTACCTCCAGAAAGATAACCCTGCTGAATATGCCAGTTTAATGGAAATACTTTATACCCTCAAGGAGAAGGGCTCCAGTAACCACAACCTACTGTCTGCGTCACGCACAGCCCTGACCCGGCTGAACCAGCAGGCCCACCAGCTGGCTTTCGACTCGGTCTTCTTGCGCATCAAACAGCAGCTGCTGCTCGTTTCCAGGATGGAT
Peptide sequence:
MYVSHFTNALQSIRKKCKLDDIPPNSLFQEDWTAFQNSVRIIATCGELLRQCGDFEQQLANRILSTAGKYLSDSYSPRSLAGFQDSILTDKKSPAKNPWQEYNYLQKDNPAEYASLMEILYTLKEKGSSNHNLLSASRTALTRLNQQAHQLAFDSVFLRIKQQLLLVSRMD
IRESfinder result
IRESfinder score
0.517180713
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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