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mmu_circNcor1_1488
Basic information of circular RNA
PanCircBase ID:
mmu_circNcor1_1488
mm39_Chr. Position ID:
chr11|62233822|62249841|-
Gene name:
Ncor1
Transcript:
ENSMUST00000101066.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
30,29,28,27,26,25,24,23,22
Exon/intron offsets:
0,1635,2238,6356,8381,10237,11374,11574,15858
Genomic length:
16019
Exon/intron sizes in nt:
3,55,25,78,41,41,16,91,00,00,00,00,000
Flanking exon/introns:
chr11:62231455-62233822|chr11:62249841-62257789
Splice length:
1488
Other database IDs:
CIRCpedia: MMU_CIRCpedia_25237, circAtlas: mmu-Ncor1_0221
Human Ortholog IDs:
Mature spliced Sequence:
TCCTCCAACCTGCTCCGCATCAAGTGATAACTAACCTTCCTGAAGGGGTTCGGCTTCCAACAACACGACCAACCAGGCCACCACCTCCCCTCATCCCATCATCTAAAACCACAGTGGCATCAGAAAAACCATCCTTTATAATGGGAGGGTCTATCTCACAGGGAACTCCTGGCACTTACTTGTCTTCTCATAATCAGGCTTATCCACAAGAAGCCCCTAAGCCCTCCGTGGGGTCTATCTCTCTGGGATTGCCCCGGCAGCAGGAGTCTACCAAAGCAGCTCCTTTGACCTACATCAAGCAGGAAGAATTTTCTCCGAGAAGCCAAAACTCACAACCTGAGGGTTTATTGGTCAGAGCGCAGCATGAAGGTGTGGTCAGAGGCACTGCAGGGGCTGTCCAAGAAGGAAGTATAACTCGGGGAACTCCAGCCAGCAAAATCTCAGTGGAGACCATTTCATCGTTGCGGGGCTCTATTACCCAGGGGACCCCAGCTCTGCCCCAGGCTGGAATACCAACAGAGGCTTTGGTGAAGGGACCTGTCTCCAGGATGCCTATTGAAGAAAGCAGTCCTGAGAAGGTCAGAGAGGAAGCTGCATCCAAGGGCCATGTTATCTATGAAGGCAAAAGTGGACATATCTTATCATATGATAATATTAAGAATGCCCGAGAAGGGACTCGGAGTCCAAGAACAGCTCATGAAATGAGTTTAAAAAGAAGCTATGAGGCAGTGGAAGGAAGTATAAAGCAAGGCATGTCGATGAGGGAGTCTCCTGTGTCAGCACCTTTAGAGGGTCTGATATGCCGAGCATTACCCAGGGGGAGCCCTCATTCTGACCTCAAAGAGAGGACTGTGCTGTCTGGTTCCATAATGCAGGGCACACCAAGAGCCACAGCGGAAAGCTTTGAGGACGGCCTTAAATACCCCAAACAGATAAAAAGGGAGAGCCCTCCCATCCGAGCATTTGAAGGTGCCATTACCAAAGGAAAACCATACGATGGTATCACCACCATCAAAGAAATGGGGCGCTCCATCCATGAAATCCCACGGCAAGATATTCTAACTCAGGAAAGCCGGAAAACTCCAGAAGTGGTCCAGAGCACGAGGCCAATAATTGAGGGTTCCATTTCCCAGGGCACACCAATAAAATTTGACAACAACTCAGGTCAATCAGCTATCAAACACAATGTGAAGTCCTTAATCACAGGGCCTAGCAAACTACCCCGTGGAATGCTGGAAATTGTACCAGAGAACATAAAAGTAGTAGAACGGGGAAAATATGAGGATGTGAAAGCAGGCGAGCCAGTGCGAGCCCGGCACACGTCAGTGGTGAGCTCTGGCCCCTCCGTTCTCAGGTCTACACTTCACGAAGCTCCCAAAGCACAGCTGAGCCCGGGACTCTATGATGACAGCAGCGCTCGCAGGACTCCTGTGAGCTACCAGAACACCATATCCAGAGGCTCCCCCATGATGAACAGAACTTCTGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCCGGGACTCTATGATGA
59.81
GTGTTGTTGGAAGCCGAACC
59.97
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCCGGGACTCTATGATGA
59.81
TGGTTGGTCGTGTTGTTGGA
60.04
175
PCR template sequence:
AGCCCGGGACTCTATGATGACAGCAGCGCTCGCAGGACTCCTGTGAGCTACCAGAACACCATATCCAGAGGCTCCCCCATGATGAACAGAACTTCTGATGTCCTCCAACCTGCTCCGCATCAAGTGATAACTAACCTTCCTGAAGGGGTTCGGCTTCCAACAACACGACCAACCAGGCCACCACCTCCCCTCATCCCATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(2), mmu-miR-27a-5p(2), mmu-miR-211-5p(1), mmu-miR-328-3p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-467b-5p(1), mmu-miR-370-3p(1), mmu-miR-324-3p(1), mmu-miR-190b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAACTTCTGATGTCCTCCAACCTGC
siRNA sets
GTTGGAGGACATCAGAAGT, TTGGAGGACATCAGAAGTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNCOR1_1488_ORF_1
0.8423
0.150973124
0.99999997
2835
ORF sequence:
ATGGGAGGGTCTATCTCACAGGGAACTCCTGGCACTTACTTGTCTTCTCATAATCAGGCTTATCCACAAGAAGCCCCTAAGCCCTCCGTGGGGTCTATCTCTCTGGGATTGCCCCGGCAGCAGGAGTCTACCAAAGCAGCTCCTTTGACCTACATCAAGCAGGAAGAATTTTCTCCGAGAAGCCAAAACTCACAACCTGAGGGTTTATTGGTCAGAGCGCAGCATGAAGGTGTGGTCAGAGGCACTGCAGGGGCTGTCCAAGAAGGAAGTATAACTCGGGGAACTCCAGCCAGCAAAATCTCAGTGGAGACCATTTCATCGTTGCGGGGCTCTATTACCCAGGGGACCCCAGCTCTGCCCCAGGCTGGAATACCAACAGAGGCTTTGGTGAAGGGACCTGTCTCCAGGATGCCTATTGAAGAAAGCAGTCCTGAGAAGGTCAGAGAGGAAGCTGCATCCAAGGGCCATGTTATCTATGAAGGCAAAAGTGGACATATCTTATCATATGATAATATTAAGAATGCCCGAGAAGGGACTCGGAGTCCAAGAACAGCTCATGAAATGAGTTTAAAAAGAAGCTATGAGGCAGTGGAAGGAAGTATAAAGCAAGGCATGTCGATGAGGGAGTCTCCTGTGTCAGCACCTTTAGAGGGTCTGATATGCCGAGCATTACCCAGGGGGAGCCCTCATTCTGACCTCAAAGAGAGGACTGTGCTGTCTGGTTCCATAATGCAGGGCACACCAAGAGCCACAGCGGAAAGCTTTGAGGACGGCCTTAAATACCCCAAACAGATAAAAAGGGAGAGCCCTCCCATCCGAGCATTTGAAGGTGCCATTACCAAAGGAAAACCATACGATGGTATCACCACCATCAAAGAAATGGGGCGCTCCATCCATGAAATCCCACGGCAAGATATTCTAACTCAGGAAAGCCGGAAAACTCCAGAAGTGGTCCAGAGCACGAGGCCAATAATTGAGGGTTCCATTTCCCAGGGCACACCAATAAAATTTGACAACAACTCAGGTCAATCAGCTATCAAACACAATGTGAAGTCCTTAATCACAGGGCCTAGCAAACTACCCCGTGGAATGCTGGAAATTGTACCAGAGAACATAAAAGTAGTAGAACGGGGAAAATATGAGGATGTGAAAGCAGGCGAGCCAGTGCGAGCCCGGCACACGTCAGTGGTGAGCTCTGGCCCCTCCGTTCTCAGGTCTACACTTCACGAAGCTCCCAAAGCACAGCTGAGCCCGGGACTCTATGATGACAGCAGCGCTCGCAGGACTCCTGTGAGCTACCAGAACACCATATCCAGAGGCTCCCCCATGATGAACAGAACTTCTGATGTCCTCCAACCTGCTCCGCATCAAGTGATAACTAACCTTCCTGAAGGGGTTCGGCTTCCAACAACACGACCAACCAGGCCACCACCTCCCCTCATCCCATCATCTAAAACCACAGTGGCATCAGAAAAACCATCCTTTATAATGGGAGGGTCTATCTCACAGGGAACTCCTGGCACTTACTTGTCTTCTCATAATCAGGCTTATCCACAAGAAGCCCCTAAGCCCTCCGTGGGGTCTATCTCTCTGGGATTGCCCCGGCAGCAGGAGTCTACCAAAGCAGCTCCTTTGACCTACATCAAGCAGGAAGAATTTTCTCCGAGAAGCCAAAACTCACAACCTGAGGGTTTATTGGTCAGAGCGCAGCATGAAGGTGTGGTCAGAGGCACTGCAGGGGCTGTCCAAGAAGGAAGTATAACTCGGGGAACTCCAGCCAGCAAAATCTCAGTGGAGACCATTTCATCGTTGCGGGGCTCTATTACCCAGGGGACCCCAGCTCTGCCCCAGGCTGGAATACCAACAGAGGCTTTGGTGAAGGGACCTGTCTCCAGGATGCCTATTGAAGAAAGCAGTCCTGAGAAGGTCAGAGAGGAAGCTGCATCCAAGGGCCATGTTATCTATGAAGGCAAAAGTGGACATATCTTATCATATGATAATATTAAGAATGCCCGAGAAGGGACTCGGAGTCCAAGAACAGCTCATGAAATGAGTTTAAAAAGAAGCTATGAGGCAGTGGAAGGAAGTATAAAGCAAGGCATGTCGATGAGGGAGTCTCCTGTGTCAGCACCTTTAGAGGGTCTGATATGCCGAGCATTACCCAGGGGGAGCCCTCATTCTGACCTCAAAGAGAGGACTGTGCTGTCTGGTTCCATAATGCAGGGCACACCAAGAGCCACAGCGGAAAGCTTTGAGGACGGCCTTAAATACCCCAAACAGATAAAAAGGGAGAGCCCTCCCATCCGAGCATTTGAAGGTGCCATTACCAAAGGAAAACCATACGATGGTATCACCACCATCAAAGAAATGGGGCGCTCCATCCATGAAATCCCACGGCAAGATATTCTAACTCAGGAAAGCCGGAAAACTCCAGAAGTGGTCCAGAGCACGAGGCCAATAATTGAGGGTTCCATTTCCCAGGGCACACCAATAAAATTTGACAACAACTCAGGTCAATCAGCTATCAAACACAATGTGAAGTCCTTAATCACAGGGCCTAGCAAACTACCCCGTGGAATGCTGGAAATTGTACCAGAGAACATAAAAGTAGTAGAACGGGGAAAATATGAGGATGTGAAAGCAGGCGAGCCAGTGCGAGCCCGGCACACGTCAGTGGTGAGCTCTGGCCCCTCCGTTCTCAGGTCTACACTTCACGAAGCTCCCAAAGCACAGCTGAGCCCGGGACTCTATGATGACAGCAGCGCTCGCAGGACTCCTGTGAGCTACCAGAACACCATATCCAGAGGCTCCCCCATGATGAACAGAACTTCTGAT
Peptide sequence:
MGGSISQGTPGTYLSSHNQAYPQEAPKPSVGSISLGLPRQQESTKAAPLTYIKQEEFSPRSQNSQPEGLLVRAQHEGVVRGTAGAVQEGSITRGTPASKISVETISSLRGSITQGTPALPQAGIPTEALVKGPVSRMPIEESSPEKVREEAASKGHVIYEGKSGHILSYDNIKNAREGTRSPRTAHEMSLKRSYEAVEGSIKQGMSMRESPVSAPLEGLICRALPRGSPHSDLKERTVLSGSIMQGTPRATAESFEDGLKYPKQIKRESPPIRAFEGAITKGKPYDGITTIKEMGRSIHEIPRQDILTQESRKTPEVVQSTRPIIEGSISQGTPIKFDNNSGQSAIKHNVKSLITGPSKLPRGMLEIVPENIKVVERGKYEDVKAGEPVRARHTSVVSSGPSVLRSTLHEAPKAQLSPGLYDDSSARRTPVSYQNTISRGSPMMNRTSDVLQPAPHQVITNLPEGVRLPTTRPTRPPPPLIPSSKTTVASEKPSFIMGGSISQGTPGTYLSSHNQAYPQEAPKPSVGSISLGLPRQQESTKAAPLTYIKQEEFSPRSQNSQPEGLLVRAQHEGVVRGTAGAVQEGSITRGTPASKISVETISSLRGSITQGTPALPQAGIPTEALVKGPVSRMPIEESSPEKVREEAASKGHVIYEGKSGHILSYDNIKNAREGTRSPRTAHEMSLKRSYEAVEGSIKQGMSMRESPVSAPLEGLICRALPRGSPHSDLKERTVLSGSIMQGTPRATAESFEDGLKYPKQIKRESPPIRAFEGAITKGKPYDGITTIKEMGRSIHEIPRQDILTQESRKTPEVVQSTRPIIEGSISQGTPIKFDNNSGQSAIKHNVKSLITGPSKLPRGMLEIVPENIKVVERGKYEDVKAGEPVRARHTSVVSSGPSVLRSTLHEAPKAQLSPGLYDDSSARRTPVSYQNTISRGSPMMNRTSD
IRESfinder result
IRESfinder score
0.506734128
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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