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mmu_circNup205_389
Basic information of circular RNA
PanCircBase ID:
mmu_circNup205_389
mm39_Chr. Position ID:
chr6|35166030|35167018|+
Gene name:
Nup205
Transcript:
ENSMUST00000201374.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,6
Exon/intron offsets:
0,759
Genomic length:
988
Exon/intron sizes in nt:
1,60,229
Flanking exon/introns:
chr6:35165703-35166030|chr6:35167018-35168808
Splice length:
389
Other database IDs:
circAtlas: mmu-Nup205_0003
circAtlas: hsa-NUP205_0106
Human Ortholog IDs:
Mature spliced Sequence:
TCCAGAGCTGGTTTCCATGACAACACGCTTTACAGATGAGCTGATGGAGCAAGGATTGACTTACAAAGTCCTTACTTTGCTGTCACAGATTGATGTGAATAATGAGTTTGAGAAACTACAGAGAGAGAGAGGTTTGGGCAGTGAGAAACACCGCAAAGAGGTTTCTGATCTCATCAAGGAGTGCAGGCAGTCTCTGGCTGAAAGTCTTTTTGCCTGGGCTTGCCAGTCACCATTACCCAAAGATGACACCCTCCTACTTATTGGACATTTGGAAAGAGTGACAGTTGAGGCCAATGGCTCCCTAGATGCAGTGAATCTGTGCCTCCTTATGGCTCTTCTGTACTGTTTTGATACCAGCTTTATAGACCAAAGCACAGAGGAACGAGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAATGGCTCCCTAGATGCA
59.52
TCAGCTCATCTGTAAAGCGTGT
60.03
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGGCTCCCTAGATGCAGTG
59.24
TCAGCTCATCTGTAAAGCGTGT
60.03
140
PCR template sequence:
GCCAATGGCTCCCTAGATGCAGTGAATCTGTGCCTCCTTATGGCTCTTCTGTACTGTTTTGATACCAGCTTTATAGACCAAAGCACAGAGGAACGAGATGTCCAGAGCTGGTTTCCATGACAACACGCTTTACAGATGAGCTGATGGAGCAAGGATTGACTTACAAAGTCCTTACTTTGCTGTCACAGATTGATGTGAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-134-5p(1), mmu-miR-217-5p(1), mmu-miR-320-3p(1), mmu-miR-218-5p(1), mmu-miR-324-3p(1), mmu-miR-383-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGGAACGAGATGTCCAGAGCTGGTT
siRNA sets
AACCAGCTCTGGACATCTC,TCTGGACATCTCGTTCCTC,CTCTGGACATCTCGTTCCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNUP205_389_ORF_1
0.9023
0.129621552
0.445870439
393
ORF sequence:
ATGACAACACGCTTTACAGATGAGCTGATGGAGCAAGGATTGACTTACAAAGTCCTTACTTTGCTGTCACAGATTGATGTGAATAATGAGTTTGAGAAACTACAGAGAGAGAGAGGTTTGGGCAGTGAGAAACACCGCAAAGAGGTTTCTGATCTCATCAAGGAGTGCAGGCAGTCTCTGGCTGAAAGTCTTTTTGCCTGGGCTTGCCAGTCACCATTACCCAAAGATGACACCCTCCTACTTATTGGACATTTGGAAAGAGTGACAGTTGAGGCCAATGGCTCCCTAGATGCAGTGAATCTGTGCCTCCTTATGGCTCTTCTGTACTGTTTTGATACCAGCTTTATAGACCAAAGCACAGAGGAACGAGATGTCCAGAGCTGGTTTCCATGA
Peptide sequence:
MTTRFTDELMEQGLTYKVLTLLSQIDVNNEFEKLQRERGLGSEKHRKEVSDLIKECRQSLAESLFAWACQSPLPKDDTLLLIGHLERVTVEANGSLDAVNLCLLMALLYCFDTSFIDQSTEERDVQSWFP
IRESfinder result
IRESfinder score
0.592008184
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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