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mmu_ciMap4k4_598
Basic information of circular RNA
PanCircBase ID:
mmu_ciMap4k4_598
mm39_Chr. Position ID:
chr1|40022429|40023027|+
Gene name:
Map4k4
Transcript:
ENSMUST00000163854.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
598
Exon/intron sizes in nt:
598
Flanking exon/introns:
chr1:40022429-40023042
Splice length:
598
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGAACACCCACCCCCTTGCCGGGCATTTTTGTGTAAACTGTAACTTCTCTTAAACAAATAAATTGAAGTGATTATAGAGTGACCTCTAGGGACTTGAAACCATAGTGCACCTTTTTATCCAGGCATAAAACTCATATTTCATTATCTGATTCAGCTTGACTGTACTACTGTTTTATTTGTCAATAAAAACAAAACTTCTGCTTTAGTGATTGTTGTACCTGTTAGTAGTGTTAAAATTGAGTTCATAGTTTAACTGTTCCTGGTGTATTTCAGTATTTGTTGTCAATATCCATTAGTGAGAATTAATTTAAATCATTGCTACACCAAGATTTTCTTTTAATTTGAATTATTTAAATATGTATTACAGACTCATTTTTCTACTCCTTAATACATACATAAAAATTGAAACACTTTTCACCATTATCAGAATAATATCATGCTTAAGTAAATAAAAGCGATCTAATCCCTAGGGCTGGAGAGATAATAATGTCCTAGCAAGATTTGTTTTGTTTTTGTTTTTGTTTTTTACCTGAAGGATGCTTTTATTCCATTTGTATGACTGTCCAGAAATACAACTAGGCATCTGGAACATTCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTGAAGGATGCTTTTATTCCA
58.07
TCAAGTCCCTAGAGGTCACTC
57.91
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTGAAGGATGCTTTTATTCCA
58.07
TCAAGTCCCTAGAGGTCACT
56.7
168
PCR template sequence:
CAAGATTTGTTTTGTTTTTGTTTTTGTTTTTTACCTGAAGGATGCTTTTATTCCATTTGTATGACTGTCCAGAAATACAACTAGGCATCTGGAACATTCTGTAAGAACACCCACCCCCTTGCCGGGCATTTTTGTGTAAACTGTAACTTCTCTTAAACAAATAAATTGAAGTGATTATAGAGTGACCTCTAGGGACTTGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-18a-5p(1), mmu-miR-297a-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTGGAACATTCTGTAAGAACACCCA
siRNA sets
TGTTCTTACAGAATGTTCC, TTCTTACAGAATGTTCCAG, TCTTACAGAATGTTCCAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.954424575
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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