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mmu_circNcor1_2799
Basic information of circular RNA
PanCircBase ID:
mmu_circNcor1_2799
mm39_Chr. Position ID:
chr11|62263901|62329341|-
Gene name:
Ncor1
Transcript:
ENSMUST00000018645.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
19
Exon/intron indexes:
20,19,18,17,16,15,14,13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,3559,5439,8332,10085,11642,16615,17903,19429,22062,25189,28125,30723,31334,37744,46522,49799,60487,65262
Genomic length:
65440
Exon/intron sizes in nt:
54,71,27,14,06,32,15,10,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr11:62260249-62263901|chr11:62329341-62347973
Splice length:
2799
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTGCTTCCTAGAAACATGGTTGTTTGTTGGACTTGATCTCACAGCCCAGTGAGGACGTCTTTACTGATAATGTCAAGTTCAGGTTACCCTCCCAACCAAGGAGCTTTCAGCACAGAGCAAAGTCGTTATCCTTCACATTCTGTCCAGTATACCTTTCCCAGTACCCGACACCAGCAGGAATTTGCAGTTCCTGACTACCGCTCTTCTCATATTGAAGTTAGCCAGGCATCACAGCTTTTACAGCAGCAGCAGCAGCAGCAGCAGCTTCGAAGACGACCTTCCTTGCTTTCAGAATTTCACCCGGGTTCTGACAGGCCTCAAGAAAGGAGAACTGGATATGAACAGTTTCACTCAGGACCCTCACCGGTGGATCATGATTCCTTGGAGTCCAAGCGCCCACGCCTGGAGCCAGTTTCTGATGCCCATTTCCAGCGTGTTAGTGCTGCGGTTTTACCTTTAGTTCACTCGCTGCCAGAAGGCTTGAGGTCGTCTGCAGATGCTAAGAAGGATTCAGCATTTGGAAGCAAACATGAAGCTCCATCCTCTCCTTTGGCTGGGCAACCATGTGGAGATGACCAAAATGCTTCACCTTCAAAGCTTTCAAAGGAGGAGTTAATACAGAGTATGGACCGGGTAGACCGAGAGATTGCAAAAGTAGAGCAGCAGATCCTTAAATTGAAAAAGAAACAACAACAGCTAGAAGAAGAAGCAGCTAAGCCCCCTGAACCAGAGAAGCCTGTGTCCCCTCCTCCTGTGGAACAAAAACACCGTAGTATTGTCCAAATTATTTATGATGAGAATCGGAAAAAAGCAGAAGAAGCTCATAAAATATTTGAAGGTCTTGGCCCAAAAGTTGAACTGCCACTCTATAACCAGCCATCAGATACCAAGGTGTACCATGAGAACATCAAGACAAACCAGGTGATGAGGAAAAAACTCATTTTATTTTTTAAAAGAAGAAATCATGCAAGAAAACAAAGGGAACAAAAAATCTGCCAGCGCTATGATCAGCTCATGGAAGCGTGGGAGAAAAAAGTGGACAGAATAGAAAATAATCCCCGGAGGAAAGCAAAAGAAAGCAAAACAAGGGAATACTATGAGAAGCAGTTTCCAGAAATTCGAAAACAAAGAGAACAGCAAGAAAGATTTCAGCGAGTTGGTCAGAGGGGAGCTGGTCTTTCAGCCACCATTGCTAGGAGTGAGCATGAGATTTCTGAAATTATTGATGGTCTTTCTGAACAGGAGAATAATGAGAAGCAAATGCGTCAGCTTTCTGTGATTCCACCTATGATGTTTGATGCAGAACAAAGAAGGGTCAAATTCATCAATATGAATGGGCTGATGGAGGATCCAATGAAGGTTTATAAAGACAGACAGTTTATGAATGTTTGGACTGACCATGAAAAGGAGATCTTTAAGGACAAGTTTATCCAGCATCCAAAAAACTTTGGACTAATTGCATCCTATTTGGAAAGGAAGAGTGTTCCTGATTGTGTTTTATATTACTATTTAACCAAGAAAAATGAGAATTATAAGGCCCTCGTGAGAAGGAATTATGGAAAACGCAGAGGCAGAAATCAGCAGATTGCCCGTCCCTCACAAGAAGAAAAAGTAGAAGAAAAGGAAGAGGATAAAGCAGAAAAAACAGAGAAAAAGGAAGAAGAAAAGAAGGATGATGAAGAAAAAGATGATAAGGAAGACTCTAAAGAAACAACCAAGGAAAAGGACAGAACGGAAGCCACAGCAGAAGAACCTGAAGAAAGAGAGCAGGTCACTCCAAGGGGGCGAAAGACTGCTAACAGCCAAGGCCGCCGGAAGGGCCGGGTCACCAGGTCGATGACAAGTGAAGCTGCAGCTGCCAATGCTGCTGCTGCAGCCACTGAGGAGCCCCCGCCACCCCTGCCGCCACCACCAGAGCCCATTTCTACAGAACCTGTTGAGACTTCAAGATGGACAGAAGAAGAAATGGAAGTTGCTAAAAAAGGCCTGGTAGAACATGGTCGTAACTGGGCAGCCATTGCTAAAATGGTGGGAACTAAAAGTGAAGCCCAGTGCAAAAACTTCTATTTTAACTATAAAAGACGGCATAATCTTGACAACCTTTTGCAGCAACATAAACAGAAAGCTTCACGGAAACCCCGTGAGGAACGAGATGTATCTCAGTGTGAAAGTGTTGCTTCCACTGTTTCTGCCCAAGAGGATGAAGATATTGAAGCCTCAAATGAGGAGGAAAATCCAGAAGATAGTGAAGGTGCTGAAAATAGTTCTGATACAGAAAGTGCTCCCTCTCCTTCACCAGTTGAAGCTGCCAAGTCCAGTGAAGACAGCAGTGAAAATGCTGCTTCTCGAGGAAACACCGAGCCTGTGGCTGAGCTTGAGGCCACCACTGACCCTGCACCCTGTGCATCTCCCTCTTCAGCAGTTCCAACCACAAAACCAGCAGAAAGGGAAAGCGTGGAGGCCCAGGTGACCGACAGCGCCAGTGCTGAGACCGCAGAGCCGATGGACGTAGACCATGAGGAGTGCGGTGCCGAGGGCAGTTCTGTTCTTGATCCACCAGCCCCTACCAAAGCCGACTCCGTGGACCCAGAAATGCAGGTACCAGAAAATACTGCGTCTAAAGGTGAAGGGGATGCCAAGGAAAGAGACTTGGAGAGCACCAGTGAGAAGACAGAGGCTAGAGATGAAGACGTGGTAGTGGCTGAACAGATCGAGAGGCCTGAGCCACAGTCAGACGACGACTCCAGTGCCACTTGCAGTGCGGATGAGGGTGTGGATGGAGAGCCAGAGAGGCAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGAGCCACAGTCAGACGAC
60.39
TAAAGACGTCCTCACTGGGC
59.39
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGAACAGATCGAGAGGCC
60.53
TAAAGACGTCCTCACTGGGC
59.39
162
PCR template sequence:
TGGCTGAACAGATCGAGAGGCCTGAGCCACAGTCAGACGACGACTCCAGTGCCACTTGCAGTGCGGATGAGGGTGTGGATGGAGAGCCAGAGAGGCAGAGGTTGCTTCCTAGAAACATGGTTGTTTGTTGGACTTGATCTCACAGCCCAGTGAGGACGTCTTTACTGATAATGTCAAGTTCAGGTTACCCTCCCAACCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
20
Interacting miRNAs (#binding sites)
mmu-miR-335-3p(3), mmu-miR-103-3p(2), mmu-miR-211-5p(2), mmu-miR-138-5p(2), mmu-miR-149-5p(2), mmu-miR-29b-1-5p(2), mmu-miR-107-3p(2), mmu-miR-181a-5p(1), mmu-miR-204-5p(1), mmu-miR-322-5p(1), mmu-miR-216a-5p(1), mmu-miR-320-3p(1), mmu-miR-324-5p(1), mmu-miR-181b-5p(1), mmu-miR-370-3p(1), mmu-miR-27a-5p(1), mmu-miR-129-5p(1), mmu-miR-3065-5p(1), mmu-miR-1904(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGAGAGGCAGAGGTTGCTTCCTAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNCOR1_2799_ORF_1
1.1697
0.225292692
0.999999979
2766
ORF sequence:
ATGTCAAGTTCAGGTTACCCTCCCAACCAAGGAGCTTTCAGCACAGAGCAAAGTCGTTATCCTTCACATTCTGTCCAGTATACCTTTCCCAGTACCCGACACCAGCAGGAATTTGCAGTTCCTGACTACCGCTCTTCTCATATTGAAGTTAGCCAGGCATCACAGCTTTTACAGCAGCAGCAGCAGCAGCAGCAGCTTCGAAGACGACCTTCCTTGCTTTCAGAATTTCACCCGGGTTCTGACAGGCCTCAAGAAAGGAGAACTGGATATGAACAGTTTCACTCAGGACCCTCACCGGTGGATCATGATTCCTTGGAGTCCAAGCGCCCACGCCTGGAGCCAGTTTCTGATGCCCATTTCCAGCGTGTTAGTGCTGCGGTTTTACCTTTAGTTCACTCGCTGCCAGAAGGCTTGAGGTCGTCTGCAGATGCTAAGAAGGATTCAGCATTTGGAAGCAAACATGAAGCTCCATCCTCTCCTTTGGCTGGGCAACCATGTGGAGATGACCAAAATGCTTCACCTTCAAAGCTTTCAAAGGAGGAGTTAATACAGAGTATGGACCGGGTAGACCGAGAGATTGCAAAAGTAGAGCAGCAGATCCTTAAATTGAAAAAGAAACAACAACAGCTAGAAGAAGAAGCAGCTAAGCCCCCTGAACCAGAGAAGCCTGTGTCCCCTCCTCCTGTGGAACAAAAACACCGTAGTATTGTCCAAATTATTTATGATGAGAATCGGAAAAAAGCAGAAGAAGCTCATAAAATATTTGAAGGTCTTGGCCCAAAAGTTGAACTGCCACTCTATAACCAGCCATCAGATACCAAGGTGTACCATGAGAACATCAAGACAAACCAGGTGATGAGGAAAAAACTCATTTTATTTTTTAAAAGAAGAAATCATGCAAGAAAACAAAGGGAACAAAAAATCTGCCAGCGCTATGATCAGCTCATGGAAGCGTGGGAGAAAAAAGTGGACAGAATAGAAAATAATCCCCGGAGGAAAGCAAAAGAAAGCAAAACAAGGGAATACTATGAGAAGCAGTTTCCAGAAATTCGAAAACAAAGAGAACAGCAAGAAAGATTTCAGCGAGTTGGTCAGAGGGGAGCTGGTCTTTCAGCCACCATTGCTAGGAGTGAGCATGAGATTTCTGAAATTATTGATGGTCTTTCTGAACAGGAGAATAATGAGAAGCAAATGCGTCAGCTTTCTGTGATTCCACCTATGATGTTTGATGCAGAACAAAGAAGGGTCAAATTCATCAATATGAATGGGCTGATGGAGGATCCAATGAAGGTTTATAAAGACAGACAGTTTATGAATGTTTGGACTGACCATGAAAAGGAGATCTTTAAGGACAAGTTTATCCAGCATCCAAAAAACTTTGGACTAATTGCATCCTATTTGGAAAGGAAGAGTGTTCCTGATTGTGTTTTATATTACTATTTAACCAAGAAAAATGAGAATTATAAGGCCCTCGTGAGAAGGAATTATGGAAAACGCAGAGGCAGAAATCAGCAGATTGCCCGTCCCTCACAAGAAGAAAAAGTAGAAGAAAAGGAAGAGGATAAAGCAGAAAAAACAGAGAAAAAGGAAGAAGAAAAGAAGGATGATGAAGAAAAAGATGATAAGGAAGACTCTAAAGAAACAACCAAGGAAAAGGACAGAACGGAAGCCACAGCAGAAGAACCTGAAGAAAGAGAGCAGGTCACTCCAAGGGGGCGAAAGACTGCTAACAGCCAAGGCCGCCGGAAGGGCCGGGTCACCAGGTCGATGACAAGTGAAGCTGCAGCTGCCAATGCTGCTGCTGCAGCCACTGAGGAGCCCCCGCCACCCCTGCCGCCACCACCAGAGCCCATTTCTACAGAACCTGTTGAGACTTCAAGATGGACAGAAGAAGAAATGGAAGTTGCTAAAAAAGGCCTGGTAGAACATGGTCGTAACTGGGCAGCCATTGCTAAAATGGTGGGAACTAAAAGTGAAGCCCAGTGCAAAAACTTCTATTTTAACTATAAAAGACGGCATAATCTTGACAACCTTTTGCAGCAACATAAACAGAAAGCTTCACGGAAACCCCGTGAGGAACGAGATGTATCTCAGTGTGAAAGTGTTGCTTCCACTGTTTCTGCCCAAGAGGATGAAGATATTGAAGCCTCAAATGAGGAGGAAAATCCAGAAGATAGTGAAGGTGCTGAAAATAGTTCTGATACAGAAAGTGCTCCCTCTCCTTCACCAGTTGAAGCTGCCAAGTCCAGTGAAGACAGCAGTGAAAATGCTGCTTCTCGAGGAAACACCGAGCCTGTGGCTGAGCTTGAGGCCACCACTGACCCTGCACCCTGTGCATCTCCCTCTTCAGCAGTTCCAACCACAAAACCAGCAGAAAGGGAAAGCGTGGAGGCCCAGGTGACCGACAGCGCCAGTGCTGAGACCGCAGAGCCGATGGACGTAGACCATGAGGAGTGCGGTGCCGAGGGCAGTTCTGTTCTTGATCCACCAGCCCCTACCAAAGCCGACTCCGTGGACCCAGAAATGCAGGTACCAGAAAATACTGCGTCTAAAGGTGAAGGGGATGCCAAGGAAAGAGACTTGGAGAGCACCAGTGAGAAGACAGAGGCTAGAGATGAAGACGTGGTAGTGGCTGAACAGATCGAGAGGCCTGAGCCACAGTCAGACGACGACTCCAGTGCCACTTGCAGTGCGGATGAGGGTGTGGATGGAGAGCCAGAGAGGCAGAGGTTGCTTCCTAGAAACATGGTTGTTTGTTGGACTTGA
Peptide sequence:
MSSSGYPPNQGAFSTEQSRYPSHSVQYTFPSTRHQQEFAVPDYRSSHIEVSQASQLLQQQQQQQQLRRRPSLLSEFHPGSDRPQERRTGYEQFHSGPSPVDHDSLESKRPRLEPVSDAHFQRVSAAVLPLVHSLPEGLRSSADAKKDSAFGSKHEAPSSPLAGQPCGDDQNASPSKLSKEELIQSMDRVDREIAKVEQQILKLKKKQQQLEEEAAKPPEPEKPVSPPPVEQKHRSIVQIIYDENRKKAEEAHKIFEGLGPKVELPLYNQPSDTKVYHENIKTNQVMRKKLILFFKRRNHARKQREQKICQRYDQLMEAWEKKVDRIENNPRRKAKESKTREYYEKQFPEIRKQREQQERFQRVGQRGAGLSATIARSEHEISEIIDGLSEQENNEKQMRQLSVIPPMMFDAEQRRVKFINMNGLMEDPMKVYKDRQFMNVWTDHEKEIFKDKFIQHPKNFGLIASYLERKSVPDCVLYYYLTKKNENYKALVRRNYGKRRGRNQQIARPSQEEKVEEKEEDKAEKTEKKEEEKKDDEEKDDKEDSKETTKEKDRTEATAEEPEEREQVTPRGRKTANSQGRRKGRVTRSMTSEAAAANAAAAATEEPPPPLPPPPEPISTEPVETSRWTEEEMEVAKKGLVEHGRNWAAIAKMVGTKSEAQCKNFYFNYKRRHNLDNLLQQHKQKASRKPREERDVSQCESVASTVSAQEDEDIEASNEEENPEDSEGAENSSDTESAPSPSPVEAAKSSEDSSENAASRGNTEPVAELEATTDPAPCASPSSAVPTTKPAERESVEAQVTDSASAETAEPMDVDHEECGAEGSSVLDPPAPTKADSVDPEMQVPENTASKGEGDAKERDLESTSEKTEARDEDVVVAEQIERPEPQSDDDSSATCSADEGVDGEPERQRLLPRNMVVCWT
IRESfinder result
IRESfinder score
0.529727539
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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