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mmu_circCnot4_464
Basic information of circular RNA
PanCircBase ID:
mmu_circCnot4_464
mm39_Chr. Position ID:
chr6|35054915|35057161|-
Gene name:
Cnot4
Transcript:
ENSMUST00000202143.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,1980
Genomic length:
2246
Exon/intron sizes in nt:
198,266
Flanking exon/introns:
chr6:35047238-35054915|chr6:35057161-35110436
Splice length:
464
Other database IDs:
circBase: mmu_circ_0013310, CIRCpedia: MMU_CIRCpedia_17600, circAtlas: mmu-Cnot4_0001
circAtlas: hsa-CNOT4_0001, CIRCpedia: HSA_CIRCpedia_157247
Human Ortholog IDs:
Mature spliced Sequence:
GTCTTCAGAGTTCTATATTTTAGCTCTCAGTGCTGAATTACCTTCTCCCTTAAATTATTATAAACTTTTGCTGCTGTCATATAAACGTGAAGATGTCTCGCAGTCCTGATGCAAAGGAAGACCCTGTGGAATGCCCTCTTTGCATGGAGCCCTTGGAAATAGATGATATTAACTTTTTCCCTTGCACCTGTGGCTACCAGATATGCCGATTTTGTTGGCATCGAATTCGCACTGATGAGAATGGGCTTTGTCCTGCATGTAGAAAACCATATCCAGAAGATCCAGCAGTTTACAAACCACTTTCCCAGGAAGAATTACAAAGGATAAAGAATGAGAAAAAACAGAAACAAAATGAAAGAAAACAGAAAATCTCAGAAAATAGAAAACATTTGGCTAGTGTACGTGTTGTACAAAAAAACCTTGTGTTTGTTGTAGGTCTGTCACAGCGCCTAGCAGACCCAGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGGCTAGTGTACGTGTTGT
57.11
TCACGTTTATATGACAGCAGCA
58.14
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGGCTAGTGTACGTGTTGT
57.82
TCACGTTTATATGACAGCAGCA
58.14
166
PCR template sequence:
GAAAATCTCAGAAAATAGAAAACATTTGGCTAGTGTACGTGTTGTACAAAAAAACCTTGTGTTTGTTGTAGGTCTGTCACAGCGCCTAGCAGACCCAGAAGTCTTCAGAGTTCTATATTTTAGCTCTCAGTGCTGAATTACCTTCTCCCTTAAATTATTATAAACTTTTGCTGCTGTCATATAAACGTGAAGATGTCTCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-495-3p(1), mmu-miR-335-3p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCAGACCCAGAAGTCTTCAGAGTTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCNOT4_464_ORF_1
0.852
-0.062629631
0.270478689
408
ORF sequence:
ATGTCTCGCAGTCCTGATGCAAAGGAAGACCCTGTGGAATGCCCTCTTTGCATGGAGCCCTTGGAAATAGATGATATTAACTTTTTCCCTTGCACCTGTGGCTACCAGATATGCCGATTTTGTTGGCATCGAATTCGCACTGATGAGAATGGGCTTTGTCCTGCATGTAGAAAACCATATCCAGAAGATCCAGCAGTTTACAAACCACTTTCCCAGGAAGAATTACAAAGGATAAAGAATGAGAAAAAACAGAAACAAAATGAAAGAAAACAGAAAATCTCAGAAAATAGAAAACATTTGGCTAGTGTACGTGTTGTACAAAAAAACCTTGTGTTTGTTGTAGGTCTGTCACAGCGCCTAGCAGACCCAGAAGTCTTCAGAGTTCTATATTTTAGCTCTCAGTGCTGA
Peptide sequence:
MSRSPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAVYKPLSQEELQRIKNEKKQKQNERKQKISENRKHLASVRVVQKNLVFVVGLSQRLADPEVFRVLYFSSQC
IRESfinder result
IRESfinder score
0.662458724
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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