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mmu_circTchp_735
Basic information of circular RNA
PanCircBase ID:
mmu_circTchp_735
mm39_Chr. Position ID:
chr5|114849313|114856521|+
Gene name:
Tchp
Transcript:
ENSMUST00000094441.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
4,5,6,7,8,9,10
Exon/intron offsets:
0,2171,3375,4300,4582,6184,7126
Genomic length:
7208
Exon/intron sizes in nt:
57,69,174,113,67,173,82
Flanking exon/introns:
chr5:114847578-114849313|chr5:114856521-114857639
Splice length:
735
Other database IDs:
circAtlas: mmu-Tchp_0006
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
ATTGCTGAACGACTTTTATATGAACACTGGAAGAAGAACAACCCCAAACTTCGAGAGCTTGAGTTGGACCTTCACAAGAAGCACGTGATAAATTCTTGGGCAACACAGAAAGAAGAAAAAAAACAGCAAGAAGCCACAGAGAAGCAGGAGAACAAGCGGTTGGAGAACCAGTACGCAGCAGCCCGCCGGGAAGCCGAGGCGAGGATGAGAGTCGAGGAGGAGAGGAGGCAGCTAGAGGGGCGCCTGCAGGCCGAGGCGCTGCGCCAGCAGATGGAGGAGCTGAAGCAGAAGGAGATGGAGGCAACCAAACTGAAGAAGGAACAGGAGAACCTGCTGAGGCAGCGCTGGGAGCTGGAAAGGCTGGAGGAGGAAAGGAGGCAGATGGCCGCCCTCCGGCGCAAGACAGAGCTGGGGCGCTTCTTGAAACATCAGTACAACGCGCAGCTCAACAGGCGCACCCAGGAGATCCAGGAGGAGCTGGAGGTAGATGGGCGGATCCTGCAGGCCCTCCTGGAGAAGGAAGGCGAGTTGCAGCAGGTGGAACTGGCCAGGCGGGAGCAAGCCCGGGCCGATGCGGCCTGGATGAAGCAGGTCATCGAGGAGCAACTGCAGCTGGAGAAAGCACGGGAGGCAGAGCTGCAGCAGCTGCTGAGGGAGGAGGCCAAGGAGATGTGGGAGAAGAGAGAGGCCGAGTGGGCCCGAGAGCAGGTCGCGCGGGACAGACTGATGAGTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGAGGCCAAGGAGATGTG
59.82
GGTCCAACTCAAGCTCTCGA
59.4
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGAGGCCAAGGAGATGTG
59.82
AGGTCCAACTCAAGCTCTCG
59.39
152
PCR template sequence:
GCTGCAGCAGCTGCTGAGGGAGGAGGCCAAGGAGATGTGGGAGAAGAGAGAGGCCGAGTGGGCCCGAGAGCAGGTCGCGCGGGACAGACTGATGAGTGAGATTGCTGAACGACTTTTATATGAACACTGGAAGAAGAACAACCCCAAACTTCGAGAGCTTGAGTTGGACCTTCACAAGAAGCACGTGATAAATTCTTGGG
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-199a-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
ACTGATGAGTGAGATTGCTGAACGAC
siRNA sets
TCGTTCAGCAATCTCACTC, TTCAGCAATCTCACTCATC, TCAGCAATCTCACTCATCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTCHP_735_ORF_1
1.231
0.645361426
0.999847199
1266
ORF sequence:
ATGAGAGTCGAGGAGGAGAGGAGGCAGCTAGAGGGGCGCCTGCAGGCCGAGGCGCTGCGCCAGCAGATGGAGGAGCTGAAGCAGAAGGAGATGGAGGCAACCAAACTGAAGAAGGAACAGGAGAACCTGCTGAGGCAGCGCTGGGAGCTGGAAAGGCTGGAGGAGGAAAGGAGGCAGATGGCCGCCCTCCGGCGCAAGACAGAGCTGGGGCGCTTCTTGAAACATCAGTACAACGCGCAGCTCAACAGGCGCACCCAGGAGATCCAGGAGGAGCTGGAGGTAGATGGGCGGATCCTGCAGGCCCTCCTGGAGAAGGAAGGCGAGTTGCAGCAGGTGGAACTGGCCAGGCGGGAGCAAGCCCGGGCCGATGCGGCCTGGATGAAGCAGGTCATCGAGGAGCAACTGCAGCTGGAGAAAGCACGGGAGGCAGAGCTGCAGCAGCTGCTGAGGGAGGAGGCCAAGGAGATGTGGGAGAAGAGAGAGGCCGAGTGGGCCCGAGAGCAGGTCGCGCGGGACAGACTGATGAGTGAGATTGCTGAACGACTTTTATATGAACACTGGAAGAAGAACAACCCCAAACTTCGAGAGCTTGAGTTGGACCTTCACAAGAAGCACGTGATAAATTCTTGGGCAACACAGAAAGAAGAAAAAAAACAGCAAGAAGCCACAGAGAAGCAGGAGAACAAGCGGTTGGAGAACCAGTACGCAGCAGCCCGCCGGGAAGCCGAGGCGAGGATGAGAGTCGAGGAGGAGAGGAGGCAGCTAGAGGGGCGCCTGCAGGCCGAGGCGCTGCGCCAGCAGATGGAGGAGCTGAAGCAGAAGGAGATGGAGGCAACCAAACTGAAGAAGGAACAGGAGAACCTGCTGAGGCAGCGCTGGGAGCTGGAAAGGCTGGAGGAGGAAAGGAGGCAGATGGCCGCCCTCCGGCGCAAGACAGAGCTGGGGCGCTTCTTGAAACATCAGTACAACGCGCAGCTCAACAGGCGCACCCAGGAGATCCAGGAGGAGCTGGAGGTAGATGGGCGGATCCTGCAGGCCCTCCTGGAGAAGGAAGGCGAGTTGCAGCAGGTGGAACTGGCCAGGCGGGAGCAAGCCCGGGCCGATGCGGCCTGGATGAAGCAGGTCATCGAGGAGCAACTGCAGCTGGAGAAAGCACGGGAGGCAGAGCTGCAGCAGCTGCTGAGGGAGGAGGCCAAGGAGATGTGGGAGAAGAGAGAGGCCGAGTGGGCCCGAGAGCAGGTCGCGCGGGACAGACTGATGAGTGAG
Peptide sequence:
MRVEEERRQLEGRLQAEALRQQMEELKQKEMEATKLKKEQENLLRQRWELERLEEERRQMAALRRKTELGRFLKHQYNAQLNRRTQEIQEELEVDGRILQALLEKEGELQQVELARREQARADAAWMKQVIEEQLQLEKAREAELQQLLREEAKEMWEKREAEWAREQVARDRLMSEIAERLLYEHWKKNNPKLRELELDLHKKHVINSWATQKEEKKQQEATEKQENKRLENQYAAARREAEARMRVEEERRQLEGRLQAEALRQQMEELKQKEMEATKLKKEQENLLRQRWELERLEEERRQMAALRRKTELGRFLKHQYNAQLNRRTQEIQEELEVDGRILQALLEKEGELQQVELARREQARADAAWMKQVIEEQLQLEKAREAELQQLLREEAKEMWEKREAEWAREQVARDRLMSE
IRESfinder result
IRESfinder score
0.149165544
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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