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mmu_circNcor1_696
Basic information of circular RNA
PanCircBase ID:
mmu_circNcor1_696
mm39_Chr. Position ID:
chr11|62233822|62236144|-
Gene name:
Ncor1
Transcript:
ENSMUST00000101066.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
30,29,28
Exon/intron offsets:
0,1635,2238
Genomic length:
2322
Exon/intron sizes in nt:
355,257,84
Flanking exon/introns:
chr11:62231455-62233822|chr11:62236144-62240178
Splice length:
696
Other database IDs:
CIRCpedia: MMU_CIRCpedia_218658, circAtlas: mmu-Ncor1_0053
circAtlas: hsa-NCOR1_0118, CIRCpedia: HSA_CIRCpedia_161916
Human Ortholog IDs:
Mature spliced Sequence:
GTCTGATATGCCGAGCATTACCCAGGGGGAGCCCTCATTCTGACCTCAAAGAGAGGACTGTGCTGTCTGGTTCCATAATGCAGGGCACACCAAGAGCCACAGCGGAAAGCTTTGAGGACGGCCTTAAATACCCCAAACAGATAAAAAGGGAGAGCCCTCCCATCCGAGCATTTGAAGGTGCCATTACCAAAGGAAAACCATACGATGGTATCACCACCATCAAAGAAATGGGGCGCTCCATCCATGAAATCCCACGGCAAGATATTCTAACTCAGGAAAGCCGGAAAACTCCAGAAGTGGTCCAGAGCACGAGGCCAATAATTGAGGGTTCCATTTCCCAGGGCACACCAATAAAATTTGACAACAACTCAGGTCAATCAGCTATCAAACACAATGTGAAGTCCTTAATCACAGGGCCTAGCAAACTACCCCGTGGAATGCTGGAAATTGTACCAGAGAACATAAAAGTAGTAGAACGGGGAAAATATGAGGATGTGAAAGCAGGCGAGCCAGTGCGAGCCCGGCACACGTCAGTGGTGAGCTCTGGCCCCTCCGTTCTCAGGTCTACACTTCACGAAGCTCCCAAAGCACAGCTGAGCCCGGGACTCTATGATGACAGCAGCGCTCGCAGGACTCCTGTGAGCTACCAGAACACCATATCCAGAGGCTCCCCCATGATGAACAGAACTTCTGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCCGGGACTCTATGATGA
59.81
TGGAACCAGACAGCACAGTC
59.89
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCGGGACTCTATGATGAC
59.68
TGGAACCAGACAGCACAGTC
59.89
174
PCR template sequence:
AGCCCGGGACTCTATGATGACAGCAGCGCTCGCAGGACTCCTGTGAGCTACCAGAACACCATATCCAGAGGCTCCCCCATGATGAACAGAACTTCTGATGGTCTGATATGCCGAGCATTACCCAGGGGGAGCCCTCATTCTGACCTCAAAGAGAGGACTGTGCTGTCTGGTTCCATAATGCAGGGCACACCAAGAGCCAC
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-9-5p(1), mmu-miR-211-5p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-27a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAACTTCTGATGGTCTGATATGCCG
siRNA sets
ATATCAGACCATCAGAAGT, ATCAGACCATCAGAAGTTC, TATCAGACCATCAGAAGTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNCOR1_696_ORF_1
0.9475
0.228853936
0.998997542
1314
ORF sequence:
ATGCAGGGCACACCAAGAGCCACAGCGGAAAGCTTTGAGGACGGCCTTAAATACCCCAAACAGATAAAAAGGGAGAGCCCTCCCATCCGAGCATTTGAAGGTGCCATTACCAAAGGAAAACCATACGATGGTATCACCACCATCAAAGAAATGGGGCGCTCCATCCATGAAATCCCACGGCAAGATATTCTAACTCAGGAAAGCCGGAAAACTCCAGAAGTGGTCCAGAGCACGAGGCCAATAATTGAGGGTTCCATTTCCCAGGGCACACCAATAAAATTTGACAACAACTCAGGTCAATCAGCTATCAAACACAATGTGAAGTCCTTAATCACAGGGCCTAGCAAACTACCCCGTGGAATGCTGGAAATTGTACCAGAGAACATAAAAGTAGTAGAACGGGGAAAATATGAGGATGTGAAAGCAGGCGAGCCAGTGCGAGCCCGGCACACGTCAGTGGTGAGCTCTGGCCCCTCCGTTCTCAGGTCTACACTTCACGAAGCTCCCAAAGCACAGCTGAGCCCGGGACTCTATGATGACAGCAGCGCTCGCAGGACTCCTGTGAGCTACCAGAACACCATATCCAGAGGCTCCCCCATGATGAACAGAACTTCTGATGGTCTGATATGCCGAGCATTACCCAGGGGGAGCCCTCATTCTGACCTCAAAGAGAGGACTGTGCTGTCTGGTTCCATAATGCAGGGCACACCAAGAGCCACAGCGGAAAGCTTTGAGGACGGCCTTAAATACCCCAAACAGATAAAAAGGGAGAGCCCTCCCATCCGAGCATTTGAAGGTGCCATTACCAAAGGAAAACCATACGATGGTATCACCACCATCAAAGAAATGGGGCGCTCCATCCATGAAATCCCACGGCAAGATATTCTAACTCAGGAAAGCCGGAAAACTCCAGAAGTGGTCCAGAGCACGAGGCCAATAATTGAGGGTTCCATTTCCCAGGGCACACCAATAAAATTTGACAACAACTCAGGTCAATCAGCTATCAAACACAATGTGAAGTCCTTAATCACAGGGCCTAGCAAACTACCCCGTGGAATGCTGGAAATTGTACCAGAGAACATAAAAGTAGTAGAACGGGGAAAATATGAGGATGTGAAAGCAGGCGAGCCAGTGCGAGCCCGGCACACGTCAGTGGTGAGCTCTGGCCCCTCCGTTCTCAGGTCTACACTTCACGAAGCTCCCAAAGCACAGCTGAGCCCGGGACTCTATGATGACAGCAGCGCTCGCAGGACTCCTGTGAGCTACCAGAACACCATATCCAGAGGCTCCCCCATGATGAACAGAACTTCTGAT
Peptide sequence:
MQGTPRATAESFEDGLKYPKQIKRESPPIRAFEGAITKGKPYDGITTIKEMGRSIHEIPRQDILTQESRKTPEVVQSTRPIIEGSISQGTPIKFDNNSGQSAIKHNVKSLITGPSKLPRGMLEIVPENIKVVERGKYEDVKAGEPVRARHTSVVSSGPSVLRSTLHEAPKAQLSPGLYDDSSARRTPVSYQNTISRGSPMMNRTSDGLICRALPRGSPHSDLKERTVLSGSIMQGTPRATAESFEDGLKYPKQIKRESPPIRAFEGAITKGKPYDGITTIKEMGRSIHEIPRQDILTQESRKTPEVVQSTRPIIEGSISQGTPIKFDNNSGQSAIKHNVKSLITGPSKLPRGMLEIVPENIKVVERGKYEDVKAGEPVRARHTSVVSSGPSVLRSTLHEAPKAQLSPGLYDDSSARRTPVSYQNTISRGSPMMNRTSD
IRESfinder result
IRESfinder score
0.46503383
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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