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mmu_circNbas_1209
Basic information of circular RNA
PanCircBase ID:
mmu_circNbas_1209
mm39_Chr. Position ID:
chr12|13524127|13570785|+
Gene name:
Nbas
Transcript:
ENSMUST00000042953.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
42,43,44,45,46,47
Exon/intron offsets:
0,8259,9583,39243,44818,46568
Genomic length:
46658
Exon/intron sizes in nt:
111,251,335,219,203,90
Flanking exon/introns:
chr12:13520071-13524127|chr12:13570785-13584380
Splice length:
1209
Other database IDs:
CIRCpedia: MMU_CIRCpedia_214849, circAtlas: mmu-Nbas_0086
CIRCpedia: HSA_CIRCpedia_375433
Human Ortholog IDs:
Mature spliced Sequence:
AAGCCTTGAGGAAAATGTCTACAGCATCGCTCTTTCCCTGGCACAGCGGTACAGTATCTCACAGTGGGAAGTCTTCATGACCCACTTGGAGTTCCTGTTCAGTGAGAGTGGTTTGTCCACAGGAGAAATTGAAAAGCGAGCCCAAACCCTTCACCTCTTTGACACTTTGAAGACAGATCCTGAGTCCTTTCATAAACACATGGTCAAGTATATCTATCCCACCATTGAGGGTCTTGACCATGAAAGGCTGCTGTATTATTTCACTCTCCTGGAAAGCTGTGGTTGTGCCAACTTTGAAACAACTGCTATTAAACCAGAAATCCACATTCGTCTGCTGAAGAAATTTAAAGTTGTTGCATCAGGTCTTAATTATAAGAAGCTGACCGATAAAAGTGAGGATGCGCTGGAAGCCCTGGAGCCTGTGCTCACGAGTCAGAATATCTTATCTATTTCCAAACTCGCCCCCAGAATCCCTGGGAAGCATGGGCAGATGCTTTCCCCCAGCTCTCTGTACACCGTCTGGTTGCAGAAGTTGTTCTGGGCTGGAGATCCGCACCTCATCAAGCAGGCTCCGGAGTCTTCCGCAGAGTGGCTTCATGCCTGTGATGTCTGCCTGAAGTACTTCGATCGACTCTGTCCGGATGACCTCATCACTGTGATGGATGCAATTACATTTTCTCCAAAAGCTGTGTCCAAGCTGTCAGTAGAAGCACGCGAAGAGATGACCAGAAAGGCCATTAAGACAATCAAGCATTTCATAGAGAAGCCAAGGAAAAGAAATTCAGAAGAGGACCCCCAAGAAGGTCGTGGTTCTCAGGCCACCTATCCAGATGCCTTGGCTCATCTGGAGACGTCGCTTGCCCACCTGGAAACCCTCAGCCACAGCTTCATCCTCAGCCTGAGGAATAGTGAGCAGGAAATACTCCAGAAATACAGTTACTTCTACGATCTGTCACGGTCAGAAAAGGAGAAAATTCATGACCAAGCTGTGGCCATGTGTTTAGATGGCCAACCTCTAAGGATGATTCAGCAGCTGCTAGAAGTGGCCATTGGTCCTGTCAACATCTCTCCCAAGGATATAGTGCATACTGCAATCACTCAAATAATTTCTGCATTGAGTGGTGGCAGTGCTGATCTCTGTGGGTCACGCGACCCCCTCCAGGTCCTAGAAGGTGTTGTTGGGGCAGTCCGCACCAGTGTGGACAATGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGCAGTGCTGATCTCTGT
60.04
GATACTGTACCGCTGTGCCA
59.83
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCAGTGCTGATCTCTGTG
60.04
GATACTGTACCGCTGTGCCA
59.83
145
PCR template sequence:
CTGCATTGAGTGGTGGCAGTGCTGATCTCTGTGGGTCACGCGACCCCCTCCAGGTCCTAGAAGGTGTTGTTGGGGCAGTCCGCACCAGTGTGGACAATGGAAGCCTTGAGGAAAATGTCTACAGCATCGCTCTTTCCCTGGCACAGCGGTACAGTATCTCACAGTGGGAAGTCTTCATGACCCACTTGGAGTTCCTGTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-203-3p(1), mmu-miR-128-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-96-5p(1), mmu-miR-541-5p(1), mmu-miR-362-5p(1), mmu-miR-680(1), mmu-miR-1198-5p(1), mmu-miR-3470b(1), mmu-miR-376a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGTGGACAATGGAAGCCTTGAGGAA
siRNA sets
CAAGGCTTCCATTGTCCAC, CTCAAGGCTTCCATTGTCC, TCAAGGCTTCCATTGTCCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNBAS_1209_ORF_1
1.2052
0.242085305
0.999999633
2340
ORF sequence:
ATGACCCACTTGGAGTTCCTGTTCAGTGAGAGTGGTTTGTCCACAGGAGAAATTGAAAAGCGAGCCCAAACCCTTCACCTCTTTGACACTTTGAAGACAGATCCTGAGTCCTTTCATAAACACATGGTCAAGTATATCTATCCCACCATTGAGGGTCTTGACCATGAAAGGCTGCTGTATTATTTCACTCTCCTGGAAAGCTGTGGTTGTGCCAACTTTGAAACAACTGCTATTAAACCAGAAATCCACATTCGTCTGCTGAAGAAATTTAAAGTTGTTGCATCAGGTCTTAATTATAAGAAGCTGACCGATAAAAGTGAGGATGCGCTGGAAGCCCTGGAGCCTGTGCTCACGAGTCAGAATATCTTATCTATTTCCAAACTCGCCCCCAGAATCCCTGGGAAGCATGGGCAGATGCTTTCCCCCAGCTCTCTGTACACCGTCTGGTTGCAGAAGTTGTTCTGGGCTGGAGATCCGCACCTCATCAAGCAGGCTCCGGAGTCTTCCGCAGAGTGGCTTCATGCCTGTGATGTCTGCCTGAAGTACTTCGATCGACTCTGTCCGGATGACCTCATCACTGTGATGGATGCAATTACATTTTCTCCAAAAGCTGTGTCCAAGCTGTCAGTAGAAGCACGCGAAGAGATGACCAGAAAGGCCATTAAGACAATCAAGCATTTCATAGAGAAGCCAAGGAAAAGAAATTCAGAAGAGGACCCCCAAGAAGGTCGTGGTTCTCAGGCCACCTATCCAGATGCCTTGGCTCATCTGGAGACGTCGCTTGCCCACCTGGAAACCCTCAGCCACAGCTTCATCCTCAGCCTGAGGAATAGTGAGCAGGAAATACTCCAGAAATACAGTTACTTCTACGATCTGTCACGGTCAGAAAAGGAGAAAATTCATGACCAAGCTGTGGCCATGTGTTTAGATGGCCAACCTCTAAGGATGATTCAGCAGCTGCTAGAAGTGGCCATTGGTCCTGTCAACATCTCTCCCAAGGATATAGTGCATACTGCAATCACTCAAATAATTTCTGCATTGAGTGGTGGCAGTGCTGATCTCTGTGGGTCACGCGACCCCCTCCAGGTCCTAGAAGGTGTTGTTGGGGCAGTCCGCACCAGTGTGGACAATGGAAGCCTTGAGGAAAATGTCTACAGCATCGCTCTTTCCCTGGCACAGCGGTACAGTATCTCACAGTGGGAAGTCTTCATGACCCACTTGGAGTTCCTGTTCAGTGAGAGTGGTTTGTCCACAGGAGAAATTGAAAAGCGAGCCCAAACCCTTCACCTCTTTGACACTTTGAAGACAGATCCTGAGTCCTTTCATAAACACATGGTCAAGTATATCTATCCCACCATTGAGGGTCTTGACCATGAAAGGCTGCTGTATTATTTCACTCTCCTGGAAAGCTGTGGTTGTGCCAACTTTGAAACAACTGCTATTAAACCAGAAATCCACATTCGTCTGCTGAAGAAATTTAAAGTTGTTGCATCAGGTCTTAATTATAAGAAGCTGACCGATAAAAGTGAGGATGCGCTGGAAGCCCTGGAGCCTGTGCTCACGAGTCAGAATATCTTATCTATTTCCAAACTCGCCCCCAGAATCCCTGGGAAGCATGGGCAGATGCTTTCCCCCAGCTCTCTGTACACCGTCTGGTTGCAGAAGTTGTTCTGGGCTGGAGATCCGCACCTCATCAAGCAGGCTCCGGAGTCTTCCGCAGAGTGGCTTCATGCCTGTGATGTCTGCCTGAAGTACTTCGATCGACTCTGTCCGGATGACCTCATCACTGTGATGGATGCAATTACATTTTCTCCAAAAGCTGTGTCCAAGCTGTCAGTAGAAGCACGCGAAGAGATGACCAGAAAGGCCATTAAGACAATCAAGCATTTCATAGAGAAGCCAAGGAAAAGAAATTCAGAAGAGGACCCCCAAGAAGGTCGTGGTTCTCAGGCCACCTATCCAGATGCCTTGGCTCATCTGGAGACGTCGCTTGCCCACCTGGAAACCCTCAGCCACAGCTTCATCCTCAGCCTGAGGAATAGTGAGCAGGAAATACTCCAGAAATACAGTTACTTCTACGATCTGTCACGGTCAGAAAAGGAGAAAATTCATGACCAAGCTGTGGCCATGTGTTTAGATGGCCAACCTCTAAGGATGATTCAGCAGCTGCTAGAAGTGGCCATTGGTCCTGTCAACATCTCTCCCAAGGATATAGTGCATACTGCAATCACTCAAATAATTTCTGCATTGAGTGGTGGCAGTGCTGATCTCTGTGGGTCACGCGACCCCCTCCAGGTCCTAGAAGGTGTTGTTGGGGCAGTCCGCACCAGTGTGGACAAT
Peptide sequence:
MTHLEFLFSESGLSTGEIEKRAQTLHLFDTLKTDPESFHKHMVKYIYPTIEGLDHERLLYYFTLLESCGCANFETTAIKPEIHIRLLKKFKVVASGLNYKKLTDKSEDALEALEPVLTSQNILSISKLAPRIPGKHGQMLSPSSLYTVWLQKLFWAGDPHLIKQAPESSAEWLHACDVCLKYFDRLCPDDLITVMDAITFSPKAVSKLSVEAREEMTRKAIKTIKHFIEKPRKRNSEEDPQEGRGSQATYPDALAHLETSLAHLETLSHSFILSLRNSEQEILQKYSYFYDLSRSEKEKIHDQAVAMCLDGQPLRMIQQLLEVAIGPVNISPKDIVHTAITQIISALSGGSADLCGSRDPLQVLEGVVGAVRTSVDNGSLEENVYSIALSLAQRYSISQWEVFMTHLEFLFSESGLSTGEIEKRAQTLHLFDTLKTDPESFHKHMVKYIYPTIEGLDHERLLYYFTLLESCGCANFETTAIKPEIHIRLLKKFKVVASGLNYKKLTDKSEDALEALEPVLTSQNILSISKLAPRIPGKHGQMLSPSSLYTVWLQKLFWAGDPHLIKQAPESSAEWLHACDVCLKYFDRLCPDDLITVMDAITFSPKAVSKLSVEAREEMTRKAIKTIKHFIEKPRKRNSEEDPQEGRGSQATYPDALAHLETSLAHLETLSHSFILSLRNSEQEILQKYSYFYDLSRSEKEKIHDQAVAMCLDGQPLRMIQQLLEVAIGPVNISPKDIVHTAITQIISALSGGSADLCGSRDPLQVLEGVVGAVRTSVDN
IRESfinder result
IRESfinder score
0.583448163
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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