top of page
mmu_circDnah9_2524
Basic information of circular RNA
PanCircBase ID:
mmu_circDnah9_2524
mm39_Chr. Position ID:
chr11|65805861|65881361|-
Gene name:
Dnah9
Transcript:
ENSMUST00000080665.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
52,51,50,49,48,47,46,45,44,43,42,41,40
Exon/intron offsets:
0,3688,12548,32433,39781,40169,40605,50597,54930,61301,66150,74679,75397
Genomic length:
75500
Exon/intron sizes in nt:
18,91,20,42,62,61,23,40,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr11:65802852-65805861|chr11:65881361-65883529
Splice length:
2524
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGATCGGAACAAGCTGTCTCTGAAGGAGATCATGAATGTACAATACATCTCCTGTATGAACCCCACTGCAGGCAGCTTTACCATCAACCCAAGGCTTCAGCGCCACTTCAGCGTGTTTGCCCTCTGCTTCCCAGGAGCTGATGCCCTCTCTTCCATCTATAGCACCATCTTGACCCATCATCTGAAGTTTGGAAACTTTCCCACCACCCTGCAGAAATCCATCCCTCCTCTGATAAACCTGGCTGTCACCTTCCATCAGAAAATTGCCACCACGTTTCTGCCCACAGCAATCAAATTTCACTACATCTTCAATCTCAGAGATTTTGCCAATATTTTCCAAGGCATTCTTTTCTCCTCCGTGGAATGTGTAAAGTCCACACAGGACCTAGTGAAACTCTATCTGCACGAGTCAAGTCGGGTTTATCGGGATAAGATGGTGGAAGAAAAGGATTTCAATCTTTTTGACAAAATCCAAACAGAATTCCTCAAGAAAAATTTTGATGATAGTGAAGAGGTGCTGAAGCAGACCCAGAACCTGAACATGTATTGTCACTTTGCAAATGGCATTGGTGAGCCCAAGTACATGCCTGTGCAATCATGGGACCTTCTGAATCAGACTCTGGTGGAAGCCCTGGAGAGCCACAATGAAGTGAATGCTGTGATGGACCTAGTTCTCTTTGAGGATGCCATACGTCACATCTGTCACATCAACCGAATCCTGGAGTCCCCTCGAGGAAATGCCCTGCTAGTTGGTGTAGGTGGGAGTGGTAAGCAGAGTCTGACAAAGCTGGCAGCTTTTATCAGTTCCATGGATGTATTCCAGATCACCCTTCGCAAAGGCTACCAAATCCCTGACTTCAAGGTGGACCTGGCCAGCCTCTGTCTGAAAGCTGGGGTAAAAAATCTCAGTACAGTGTTCCTTATGACTGATGCCCATGTGGCTGACGAGAGGTTCCTGGTGCTCATCAATGACCTCCTGGCATCTGGTGAGATCCCAGATCTCTACTCTGATGAGGAAGAGGAGAACATCATAAACAATGTGAGAAATGAGGTCAAAAGCCAGGGACTCATGGACAGCAGGGAGAACTGCTGGAAATTCTTCATAGAGAGAGTCCAGCGACAACTTAAGGTGACTCTCTGTTTCTCCCCTGTGGGGAACAAGCTGAGAATTCGAAGCAGGAAGTTCCCAGCCATTGTGAACTGTACTGCTATCAACTGGTTCCATGAGTGGCCTCAGGAGGCCCTAGAGTCTGTGAGCCTCCGATTCTTGCAGAATACAAAGAACATTGAGCCTGCGGTGAAGCAGTCAATTAGCAAGTTCATGGCCTTTGTCCACATAAGTGTCAACAAGACATCCCAGTCATACCTGACCAATGAGCAGCGATACAACTACACAACACCCAAGTCCTTTCTGGAGTTCATCAGACTGTACCAGAGCTTGCTGGAGAGAAATGGAAAAGAGCTCCAGGCCAAGGTGGAGAGGCTGGAGAACGGGCTGTTGAAACTGCACAGCACCTCGGCCCAGGTGGATGATCTGAAAGCGAAGCTTGCCACCCAGGAAGTGGAGCTGAGGCACAAGAATGAAGATACAGACAAGCTGATTCAGGTGGTGGGTGTGGAGACCAGCAAAGTGAGCAGAGAGAAAGCCATTGCTGACGAGGAGGAGCAGAAGGTGGCCCTGATCATGCTGGAGGTGCAGCAGAAACAGAAAGACTGTGAAGAGGACCTGGCTAAGGCCGAGCCAGCCCTGACCGCAGCGCAGGCGGCCCTCAACACTCTCAACAAGACCAACCTGACAGAGCTGAAGTCATTTGGTTCCCCACCTCTGGCTGTCAGCAATGTCAGCGCCGCGGTGATGGTTCTCATGGCCCCAGGGGGCAAGGTGCCCAAGGACCGCAGCTGGAAGGCTGCCAAAATCACCATGGCCAAGGTGGACAGCTTCCTGGATTCCCTAATCCACTTCGACAAGGAGAACATTCATGAGAATTGCCTCAAAGCCATCAGGCCATACCTGCAAGATCCTGCATTCAACCCAGAGTTTGTGGCCACCAAGTCCTATGCAGCTGCAGGCCTCTGCTCTTGGGTAATCAATATTGTGAGGTTCTATGAGGTCTTCTGTGATGTGGAACCAAAGCGCCAGGCTTTGAACAAAGCCACCTCAGACCTCACAACTGCCCAAGAGAAGCTGGCAGCCATCAAAGCCAAGATCACACACCTTAATGAAAACCTGGCGAAGCTCACCACCAAGTTTGAGAAAGCAACAGCAGAGAAGCTCAAGTGTCAGCAAGAAGCTGAACTGACCGCAGGCACCATTTCGCTTGCAAACCGTCTGGTTGGAGGCCTTGCATCTGAGAACATAAGGTGGGCAGAGGCTGTGCAGAACTTCAGACAGCAGGAAAGGACGTTATGTGGCGACATTCTGCTTACTACAGCTTTCATCTCCTACTTGGGCTTCTTTACCAAAAAGTACCGAAAGAGCCTCATGGATGGGACCTGGAGACCCTATCTGAGCCAACTGAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCGAAAGAGCCTCATGGATG
60.13
TGATGGTAAAGCTGCCTGCA
59.96
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCGAAAGAGCCTCATGGATG
60.13
ATGGTAAAGCTGCCTGCAGT
59.96
140
PCR template sequence:
GCTTACTACAGCTTTCATCTCCTACTTGGGCTTCTTTACCAAAAAGTACCGAAAGAGCCTCATGGATGGGACCTGGAGACCCTATCTGAGCCAACTGAAAGTATGATCGGAACAAGCTGTCTCTGAAGGAGATCATGAATGTACAATACATCTCCTGTATGAACCCCACTGCAGGCAGCTTTACCATCAACCCAAGGCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
30
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(2), mmu-miR-320-3p(2), mmu-miR-335-3p(2), mmu-miR-1904(2), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-181a-5p(1), mmu-miR-103-3p(1), mmu-miR-146a-5p(1), mmu-miR-298-5p(1), mmu-miR-23a-3p(1), mmu-miR-143-3p(1), mmu-miR-185-5p(1), mmu-miR-181b-5p(1), mmu-miR-433-3p(1), mmu-miR-363-3p(1), mmu-miR-22-3p(1), mmu-miR-218-5p(1), mmu-miR-382-5p(1), mmu-miR-107-3p(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-532-5p(1), mmu-miR-484(1), mmu-miR-3105-3p(1), mmu-miR-146b-5p(1), mmu-miR-296-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGCCAACTGAAAGTATGATCGGAAC
siRNA sets
GATCATACTTTCAGTTGGC, TCATACTTTCAGTTGGCTC, GTTCCGATCATACTTTCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAH9_2524_ORF_1
1.2815
0.37458403
0.999999936
2496
ORF sequence:
ATGAATGTACAATACATCTCCTGTATGAACCCCACTGCAGGCAGCTTTACCATCAACCCAAGGCTTCAGCGCCACTTCAGCGTGTTTGCCCTCTGCTTCCCAGGAGCTGATGCCCTCTCTTCCATCTATAGCACCATCTTGACCCATCATCTGAAGTTTGGAAACTTTCCCACCACCCTGCAGAAATCCATCCCTCCTCTGATAAACCTGGCTGTCACCTTCCATCAGAAAATTGCCACCACGTTTCTGCCCACAGCAATCAAATTTCACTACATCTTCAATCTCAGAGATTTTGCCAATATTTTCCAAGGCATTCTTTTCTCCTCCGTGGAATGTGTAAAGTCCACACAGGACCTAGTGAAACTCTATCTGCACGAGTCAAGTCGGGTTTATCGGGATAAGATGGTGGAAGAAAAGGATTTCAATCTTTTTGACAAAATCCAAACAGAATTCCTCAAGAAAAATTTTGATGATAGTGAAGAGGTGCTGAAGCAGACCCAGAACCTGAACATGTATTGTCACTTTGCAAATGGCATTGGTGAGCCCAAGTACATGCCTGTGCAATCATGGGACCTTCTGAATCAGACTCTGGTGGAAGCCCTGGAGAGCCACAATGAAGTGAATGCTGTGATGGACCTAGTTCTCTTTGAGGATGCCATACGTCACATCTGTCACATCAACCGAATCCTGGAGTCCCCTCGAGGAAATGCCCTGCTAGTTGGTGTAGGTGGGAGTGGTAAGCAGAGTCTGACAAAGCTGGCAGCTTTTATCAGTTCCATGGATGTATTCCAGATCACCCTTCGCAAAGGCTACCAAATCCCTGACTTCAAGGTGGACCTGGCCAGCCTCTGTCTGAAAGCTGGGGTAAAAAATCTCAGTACAGTGTTCCTTATGACTGATGCCCATGTGGCTGACGAGAGGTTCCTGGTGCTCATCAATGACCTCCTGGCATCTGGTGAGATCCCAGATCTCTACTCTGATGAGGAAGAGGAGAACATCATAAACAATGTGAGAAATGAGGTCAAAAGCCAGGGACTCATGGACAGCAGGGAGAACTGCTGGAAATTCTTCATAGAGAGAGTCCAGCGACAACTTAAGGTGACTCTCTGTTTCTCCCCTGTGGGGAACAAGCTGAGAATTCGAAGCAGGAAGTTCCCAGCCATTGTGAACTGTACTGCTATCAACTGGTTCCATGAGTGGCCTCAGGAGGCCCTAGAGTCTGTGAGCCTCCGATTCTTGCAGAATACAAAGAACATTGAGCCTGCGGTGAAGCAGTCAATTAGCAAGTTCATGGCCTTTGTCCACATAAGTGTCAACAAGACATCCCAGTCATACCTGACCAATGAGCAGCGATACAACTACACAACACCCAAGTCCTTTCTGGAGTTCATCAGACTGTACCAGAGCTTGCTGGAGAGAAATGGAAAAGAGCTCCAGGCCAAGGTGGAGAGGCTGGAGAACGGGCTGTTGAAACTGCACAGCACCTCGGCCCAGGTGGATGATCTGAAAGCGAAGCTTGCCACCCAGGAAGTGGAGCTGAGGCACAAGAATGAAGATACAGACAAGCTGATTCAGGTGGTGGGTGTGGAGACCAGCAAAGTGAGCAGAGAGAAAGCCATTGCTGACGAGGAGGAGCAGAAGGTGGCCCTGATCATGCTGGAGGTGCAGCAGAAACAGAAAGACTGTGAAGAGGACCTGGCTAAGGCCGAGCCAGCCCTGACCGCAGCGCAGGCGGCCCTCAACACTCTCAACAAGACCAACCTGACAGAGCTGAAGTCATTTGGTTCCCCACCTCTGGCTGTCAGCAATGTCAGCGCCGCGGTGATGGTTCTCATGGCCCCAGGGGGCAAGGTGCCCAAGGACCGCAGCTGGAAGGCTGCCAAAATCACCATGGCCAAGGTGGACAGCTTCCTGGATTCCCTAATCCACTTCGACAAGGAGAACATTCATGAGAATTGCCTCAAAGCCATCAGGCCATACCTGCAAGATCCTGCATTCAACCCAGAGTTTGTGGCCACCAAGTCCTATGCAGCTGCAGGCCTCTGCTCTTGGGTAATCAATATTGTGAGGTTCTATGAGGTCTTCTGTGATGTGGAACCAAAGCGCCAGGCTTTGAACAAAGCCACCTCAGACCTCACAACTGCCCAAGAGAAGCTGGCAGCCATCAAAGCCAAGATCACACACCTTAATGAAAACCTGGCGAAGCTCACCACCAAGTTTGAGAAAGCAACAGCAGAGAAGCTCAAGTGTCAGCAAGAAGCTGAACTGACCGCAGGCACCATTTCGCTTGCAAACCGTCTGGTTGGAGGCCTTGCATCTGAGAACATAAGGTGGGCAGAGGCTGTGCAGAACTTCAGACAGCAGGAAAGGACGTTATGTGGCGACATTCTGCTTACTACAGCTTTCATCTCCTACTTGGGCTTCTTTACCAAAAAGTACCGAAAGAGCCTCATGGATGGGACCTGGAGACCCTATCTGAGCCAACTGAAAGTATGA
Peptide sequence:
MNVQYISCMNPTAGSFTINPRLQRHFSVFALCFPGADALSSIYSTILTHHLKFGNFPTTLQKSIPPLINLAVTFHQKIATTFLPTAIKFHYIFNLRDFANIFQGILFSSVECVKSTQDLVKLYLHESSRVYRDKMVEEKDFNLFDKIQTEFLKKNFDDSEEVLKQTQNLNMYCHFANGIGEPKYMPVQSWDLLNQTLVEALESHNEVNAVMDLVLFEDAIRHICHINRILESPRGNALLVGVGGSGKQSLTKLAAFISSMDVFQITLRKGYQIPDFKVDLASLCLKAGVKNLSTVFLMTDAHVADERFLVLINDLLASGEIPDLYSDEEEENIINNVRNEVKSQGLMDSRENCWKFFIERVQRQLKVTLCFSPVGNKLRIRSRKFPAIVNCTAINWFHEWPQEALESVSLRFLQNTKNIEPAVKQSISKFMAFVHISVNKTSQSYLTNEQRYNYTTPKSFLEFIRLYQSLLERNGKELQAKVERLENGLLKLHSTSAQVDDLKAKLATQEVELRHKNEDTDKLIQVVGVETSKVSREKAIADEEEQKVALIMLEVQQKQKDCEEDLAKAEPALTAAQAALNTLNKTNLTELKSFGSPPLAVSNVSAAVMVLMAPGGKVPKDRSWKAAKITMAKVDSFLDSLIHFDKENIHENCLKAIRPYLQDPAFNPEFVATKSYAAAGLCSWVINIVRFYEVFCDVEPKRQALNKATSDLTTAQEKLAAIKAKITHLNENLAKLTTKFEKATAEKLKCQQEAELTAGTISLANRLVGGLASENIRWAEAVQNFRQQERTLCGDILLTTAFISYLGFFTKKYRKSLMDGTWRPYLSQLKV
IRESfinder result
IRESfinder score
0.483855881
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page