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mmu_circDnah9_1771
Basic information of circular RNA
PanCircBase ID:
mmu_circDnah9_1771
mm39_Chr. Position ID:
chr11|65802616|65846609|-
Gene name:
Dnah9
Transcript:
ENSMUST00000080665.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
53,52,51,50,49,48,47,46
Exon/intron offsets:
0,3245,6933,15793,35678,43026,43414,43850
Genomic length:
43993
Exon/intron sizes in nt:
236,189,120,426,261,234,162,143
Flanking exon/introns:
chr11:65797788-65802616|chr11:65846609-65856458
Splice length:
1771
Other database IDs:
CIRCpedia: MMU_CIRCpedia_224603, circAtlas: mmu-Dnah9_0008
circAtlas: hsa-DH9_0005
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGATCCCAGATCTCTACTCTGATGAGGAAGAGGAGAACATCATAAACAATGTGAGAAATGAGGTCAAAAGCCAGGGACTCATGGACAGCAGGGAGAACTGCTGGAAATTCTTCATAGAGAGAGTCCAGCGACAACTTAAGGTGACTCTCTGTTTCTCCCCTGTGGGGAACAAGCTGAGAATTCGAAGCAGGAAGTTCCCAGCCATTGTGAACTGTACTGCTATCAACTGGTTCCATGAGTGGCCTCAGGAGGCCCTAGAGTCTGTGAGCCTCCGATTCTTGCAGAATACAAAGAACATTGAGCCTGCGGTGAAGCAGTCAATTAGCAAGTTCATGGCCTTTGTCCACATAAGTGTCAACAAGACATCCCAGTCATACCTGACCAATGAGCAGCGATACAACTACACAACACCCAAGTCCTTTCTGGAGTTCATCAGACTGTACCAGAGCTTGCTGGAGAGAAATGGAAAAGAGCTCCAGGCCAAGGTGGAGAGGCTGGAGAACGGGCTGTTGAAACTGCACAGCACCTCGGCCCAGGTGGATGATCTGAAAGCGAAGCTTGCCACCCAGGAAGTGGAGCTGAGGCACAAGAATGAAGATACAGACAAGCTGATTCAGGTGGTGGGTGTGGAGACCAGCAAAGTGAGCAGAGAGAAAGCCATTGCTGACGAGGAGGAGCAGAAGGTGGCCCTGATCATGCTGGAGGTGCAGCAGAAACAGAAAGACTGTGAAGAGGACCTGGCTAAGGCCGAGCCAGCCCTGACCGCAGCGCAGGCGGCCCTCAACACTCTCAACAAGACCAACCTGACAGAGCTGAAGTCATTTGGTTCCCCACCTCTGGCTGTCAGCAATGTCAGCGCCGCGGTGATGGTTCTCATGGCCCCAGGGGGCAAGGTGCCCAAGGACCGCAGCTGGAAGGCTGCCAAAATCACCATGGCCAAGGTGGACAGCTTCCTGGATTCCCTAATCCACTTCGACAAGGAGAACATTCATGAGAATTGCCTCAAAGCCATCAGGCCATACCTGCAAGATCCTGCATTCAACCCAGAGTTTGTGGCCACCAAGTCCTATGCAGCTGCAGGCCTCTGCTCTTGGGTAATCAATATTGTGAGGTTCTATGAGGTCTTCTGTGATGTGGAACCAAAGCGCCAGGCTTTGAACAAAGCCACCTCAGACCTCACAACTGCCCAAGAGAAGCTGGCAGCCATCAAAGCCAAGATCACACACCTTAATGAAAACCTGGCGAAGCTCACCACCAAGTTTGAGAAAGCAACAGCAGAGAAGCTCAAGTGTCAGCAAGAAGCTGAACTGACCGCAGGCACCATTTCGCTTGCAAACCGTCTGGTTGGAGGCCTTGCATCTGAGAACATAAGGTGGGCAGAGGCTGTGCAGAACTTCAGACAGCAGGAAAGGACGTTATGTGGCGACATTCTGCTTACTACAGCTTTCATCTCCTACTTGGGCTTCTTTACCAAAAAGTACCGAAAGAGCCTCATGGATGGGACCTGGAGACCCTATCTGAGCCAACTGAAAGTTCCCATTCCAACCACCCCAACTCTGGACCCCCTGAGGATGCTAACCGATGATGCTGAAGTGGCTGCCTGGCAGAATGAGGGTCTCCCTGCTGACCGCATGTCCATGGAGAATGCTACCATCCTCATCAACTGTGAGCGCTGGCCTCTCATGGTCGACCCTCAACTGCAAGGCATTAAATGGATCAAGAACAAATATGGAGAAGAACTCCGGGTCACCCAGATTGGCCAAAAGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCTCAACTGCAAGGCATT
60.18
CTGCTGTCCATGAGTCCCTG
60.11
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCTCAACTGCAAGGCATT
60.18
GTCCCTGGCTTTTGACCTCA
59.89
160
PCR template sequence:
AGCGCTGGCCTCTCATGGTCGACCCTCAACTGCAAGGCATTAAATGGATCAAGAACAAATATGGAGAAGAACTCCGGGTCACCCAGATTGGCCAAAAGGGGTGAGATCCCAGATCTCTACTCTGATGAGGAAGAGGAGAACATCATAAACAATGTGAGAAATGAGGTCAAAAGCCAGGGACTCATGGACAGCAGGGAGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(2), mmu-miR-27a-3p(2), mmu-miR-135a-5p(2), mmu-miR-335-3p(2), mmu-miR-1904(2), mmu-miR-103-3p(1), mmu-miR-320-3p(1), mmu-miR-23a-3p(1), mmu-miR-143-3p(1), mmu-miR-185-5p(1), mmu-miR-382-5p(1), mmu-miR-107-3p(1), mmu-miR-207(1), mmu-miR-532-5p(1), mmu-miR-484(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGGCCAAAAGGGGTGAGATCCCAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAH9_1771_ORF_1
1.1862
0.381745878
0.999996476
1956
ORF sequence:
ATGATGCTGAAGTGGCTGCCTGGCAGAATGAGGGTCTCCCTGCTGACCGCATGTCCATGGAGAATGCTACCATCCTCATCAACTGTGAGCGCTGGCCTCTCATGGTCGACCCTCAACTGCAAGGCATTAAATGGATCAAGAACAAATATGGAGAAGAACTCCGGGTCACCCAGATTGGCCAAAAGGGGTGAGATCCCAGATCTCTACTCTGATGAGGAAGAGGAGAACATCATAAACAATGTGAGAAATGAGGTCAAAAGCCAGGGACTCATGGACAGCAGGGAGAACTGCTGGAAATTCTTCATAGAGAGAGTCCAGCGACAACTTAAGGTGACTCTCTGTTTCTCCCCTGTGGGGAACAAGCTGAGAATTCGAAGCAGGAAGTTCCCAGCCATTGTGAACTGTACTGCTATCAACTGGTTCCATGAGTGGCCTCAGGAGGCCCTAGAGTCTGTGAGCCTCCGATTCTTGCAGAATACAAAGAACATTGAGCCTGCGGTGAAGCAGTCAATTAGCAAGTTCATGGCCTTTGTCCACATAAGTGTCAACAAGACATCCCAGTCATACCTGACCAATGAGCAGCGATACAACTACACAACACCCAAGTCCTTTCTGGAGTTCATCAGACTGTACCAGAGCTTGCTGGAGAGAAATGGAAAAGAGCTCCAGGCCAAGGTGGAGAGGCTGGAGAACGGGCTGTTGAAACTGCACAGCACCTCGGCCCAGGTGGATGATCTGAAAGCGAAGCTTGCCACCCAGGAAGTGGAGCTGAGGCACAAGAATGAAGATACAGACAAGCTGATTCAGGTGGTGGGTGTGGAGACCAGCAAAGTGAGCAGAGAGAAAGCCATTGCTGACGAGGAGGAGCAGAAGGTGGCCCTGATCATGCTGGAGGTGCAGCAGAAACAGAAAGACTGTGAAGAGGACCTGGCTAAGGCCGAGCCAGCCCTGACCGCAGCGCAGGCGGCCCTCAACACTCTCAACAAGACCAACCTGACAGAGCTGAAGTCATTTGGTTCCCCACCTCTGGCTGTCAGCAATGTCAGCGCCGCGGTGATGGTTCTCATGGCCCCAGGGGGCAAGGTGCCCAAGGACCGCAGCTGGAAGGCTGCCAAAATCACCATGGCCAAGGTGGACAGCTTCCTGGATTCCCTAATCCACTTCGACAAGGAGAACATTCATGAGAATTGCCTCAAAGCCATCAGGCCATACCTGCAAGATCCTGCATTCAACCCAGAGTTTGTGGCCACCAAGTCCTATGCAGCTGCAGGCCTCTGCTCTTGGGTAATCAATATTGTGAGGTTCTATGAGGTCTTCTGTGATGTGGAACCAAAGCGCCAGGCTTTGAACAAAGCCACCTCAGACCTCACAACTGCCCAAGAGAAGCTGGCAGCCATCAAAGCCAAGATCACACACCTTAATGAAAACCTGGCGAAGCTCACCACCAAGTTTGAGAAAGCAACAGCAGAGAAGCTCAAGTGTCAGCAAGAAGCTGAACTGACCGCAGGCACCATTTCGCTTGCAAACCGTCTGGTTGGAGGCCTTGCATCTGAGAACATAAGGTGGGCAGAGGCTGTGCAGAACTTCAGACAGCAGGAAAGGACGTTATGTGGCGACATTCTGCTTACTACAGCTTTCATCTCCTACTTGGGCTTCTTTACCAAAAAGTACCGAAAGAGCCTCATGGATGGGACCTGGAGACCCTATCTGAGCCAACTGAAAGTTCCCATTCCAACCACCCCAACTCTGGACCCCCTGAGGATGCTAACCGATGATGCTGAAGTGGCTGCCTGGCAGAATGAGGGTCTCCCTGCTGACCGCATGTCCATGGAGAATGCTACCATCCTCATCAACTGTGAGCGCTGGCCTCTCATGGTCGACCCTCAACTGCAAGGCATTAAATGGATCAAGAACAAATATGGAGAAGAACTCCGGGTCACCCAGATTGGCCAAAAG
Peptide sequence:
MMLKWLPGRMRVSLLTACPWRMLPSSSTVSAGLSWSTLNCKALNGSRTNMEKNSGSPRLAKRGEIPDLYSDEEEENIINNVRNEVKSQGLMDSRENCWKFFIERVQRQLKVTLCFSPVGNKLRIRSRKFPAIVNCTAINWFHEWPQEALESVSLRFLQNTKNIEPAVKQSISKFMAFVHISVNKTSQSYLTNEQRYNYTTPKSFLEFIRLYQSLLERNGKELQAKVERLENGLLKLHSTSAQVDDLKAKLATQEVELRHKNEDTDKLIQVVGVETSKVSREKAIADEEEQKVALIMLEVQQKQKDCEEDLAKAEPALTAAQAALNTLNKTNLTELKSFGSPPLAVSNVSAAVMVLMAPGGKVPKDRSWKAAKITMAKVDSFLDSLIHFDKENIHENCLKAIRPYLQDPAFNPEFVATKSYAAAGLCSWVINIVRFYEVFCDVEPKRQALNKATSDLTTAQEKLAAIKAKITHLNENLAKLTTKFEKATAEKLKCQQEAELTAGTISLANRLVGGLASENIRWAEAVQNFRQQERTLCGDILLTTAFISYLGFFTKKYRKSLMDGTWRPYLSQLKVPIPTTPTLDPLRMLTDDAEVAAWQNEGLPADRMSMENATILINCERWPLMVDPQLQGIKWIKNKYGEELRVTQIGQK
IRESfinder result
IRESfinder score
0.391672826
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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