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mmu_circDnah2_711
Basic information of circular RNA
PanCircBase ID:
mmu_circDnah2_711
mm39_Chr. Position ID:
chr11|69320127|69322071|-
Gene name:
Dnah2
Transcript:
ENSMUST00000035539.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
76,75,74,73
Exon/intron offsets:
0,1172,1448,1757
Genomic length:
1944
Exon/intron sizes in nt:
1,91,18,41,49,187
Flanking exon/introns:
chr11:69314881-69320127|chr11:69322071-69323679
Splice length:
711
Other database IDs:
circAtlas: mmu-Dnah2_0021
Human Ortholog IDs:
Mature spliced Sequence:
GTCCTGGATCGTGAAGGCCAAATGGACAATCCATGTACCAGTTGGCTGGCAGATGCCTACTGGGATAATATCACAGAACTGGACAAACTGACCAACTTCCATGGGCTCATGAACTCCTTTGAGCAGTACCCTCGGGACTGGCACCTGTGGTACACCAACTCTTCCCCGGAGAAGGCCATGCTGCCAGGTGAGTGGGAGAATGCGTGCAATGAGATGCAGCGGATGCTGATCGTCCGCTCCCTGCGTCAGGACCGAGTGGCATTCTGTGTTACTTCCTTCATCGTGTCCAACCTTGGCTCTCGATTCATTGAACCGCCTGTGCTAAACATGAAATCGGTGATGGAGGACTCTACCCCGAGATCCCCACTGGTATTCATCCTGTCCCCCGGTGTAGACCCCACCAGCGCTCTGCTTCAGCTGGCGGAGCACACAGGCATGGCCCACCGCTTCCATGCCCTGTCCCTGGGCCAGGGCCAGGCCCCCATTGCTGCTCGGCTTCTTCGAGAGGGTGTGAATCAAGGGCACTGGGTGTTCCTGGCAAACTGCCACCTGTCTCTGTCTTGGATGCCTAATCTGGACAAGTTGGTGGAGCAACTGCAGGTGGAGGACCCTCACCCTTCCTTCCGCCTGTGGCTCAGCTCTAGCCCCCACCCAGACTTCCCAATCTCCATCCTGCAGGCCAGCATCAAGATGACCACAGAGCCACCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCACCCAGACTTCCCAATC
60.03
TGGTCAGTTTGTCCAGTTCTGT
59.76
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCAATCTCCATCCTGCAGG
60.18
TGGTCAGTTTGTCCAGTTCTGT
59.76
146
PCR template sequence:
TCACCCTTCCTTCCGCCTGTGGCTCAGCTCTAGCCCCCACCCAGACTTCCCAATCTCCATCCTGCAGGCCAGCATCAAGATGACCACAGAGCCACCAAAGGTCCTGGATCGTGAAGGCCAAATGGACAATCCATGTACCAGTTGGCTGGCAGATGCCTACTGGGATAATATCACAGAACTGGACAAACTGACCAACTTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-223-3p(1), mmu-miR-92a-3p(1), mmu-miR-322-5p(1), mmu-miR-25-3p(1), mmu-miR-136-5p(1), mmu-miR-363-3p(1), mmu-miR-680(1)
siRNAs for circular RNA silencing
Junction sequence
AGAGCCACCAAAGGTCCTGGATCGTG
siRNA sets
ACGATCCAGGACCTTTGGT, GATCCAGGACCTTTGGTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAH2_711_ORF_1
1.1623
0.401176496
0.999822334
1401
ORF sequence:
ATGGACAATCCATGTACCAGTTGGCTGGCAGATGCCTACTGGGATAATATCACAGAACTGGACAAACTGACCAACTTCCATGGGCTCATGAACTCCTTTGAGCAGTACCCTCGGGACTGGCACCTGTGGTACACCAACTCTTCCCCGGAGAAGGCCATGCTGCCAGGTGAGTGGGAGAATGCGTGCAATGAGATGCAGCGGATGCTGATCGTCCGCTCCCTGCGTCAGGACCGAGTGGCATTCTGTGTTACTTCCTTCATCGTGTCCAACCTTGGCTCTCGATTCATTGAACCGCCTGTGCTAAACATGAAATCGGTGATGGAGGACTCTACCCCGAGATCCCCACTGGTATTCATCCTGTCCCCCGGTGTAGACCCCACCAGCGCTCTGCTTCAGCTGGCGGAGCACACAGGCATGGCCCACCGCTTCCATGCCCTGTCCCTGGGCCAGGGCCAGGCCCCCATTGCTGCTCGGCTTCTTCGAGAGGGTGTGAATCAAGGGCACTGGGTGTTCCTGGCAAACTGCCACCTGTCTCTGTCTTGGATGCCTAATCTGGACAAGTTGGTGGAGCAACTGCAGGTGGAGGACCCTCACCCTTCCTTCCGCCTGTGGCTCAGCTCTAGCCCCCACCCAGACTTCCCAATCTCCATCCTGCAGGCCAGCATCAAGATGACCACAGAGCCACCAAAGGTCCTGGATCGTGAAGGCCAAATGGACAATCCATGTACCAGTTGGCTGGCAGATGCCTACTGGGATAATATCACAGAACTGGACAAACTGACCAACTTCCATGGGCTCATGAACTCCTTTGAGCAGTACCCTCGGGACTGGCACCTGTGGTACACCAACTCTTCCCCGGAGAAGGCCATGCTGCCAGGTGAGTGGGAGAATGCGTGCAATGAGATGCAGCGGATGCTGATCGTCCGCTCCCTGCGTCAGGACCGAGTGGCATTCTGTGTTACTTCCTTCATCGTGTCCAACCTTGGCTCTCGATTCATTGAACCGCCTGTGCTAAACATGAAATCGGTGATGGAGGACTCTACCCCGAGATCCCCACTGGTATTCATCCTGTCCCCCGGTGTAGACCCCACCAGCGCTCTGCTTCAGCTGGCGGAGCACACAGGCATGGCCCACCGCTTCCATGCCCTGTCCCTGGGCCAGGGCCAGGCCCCCATTGCTGCTCGGCTTCTTCGAGAGGGTGTGAATCAAGGGCACTGGGTGTTCCTGGCAAACTGCCACCTGTCTCTGTCTTGGATGCCTAATCTGGACAAGTTGGTGGAGCAACTGCAGGTGGAGGACCCTCACCCTTCCTTCCGCCTGTGGCTCAGCTCTAGCCCCCACCCAGACTTCCCAATCTCCATCCTGCAGGCCAGCATCAAGATGACCACAGAGCCACCAAAG
Peptide sequence:
MDNPCTSWLADAYWDNITELDKLTNFHGLMNSFEQYPRDWHLWYTNSSPEKAMLPGEWENACNEMQRMLIVRSLRQDRVAFCVTSFIVSNLGSRFIEPPVLNMKSVMEDSTPRSPLVFILSPGVDPTSALLQLAEHTGMAHRFHALSLGQGQAPIAARLLREGVNQGHWVFLANCHLSLSWMPNLDKLVEQLQVEDPHPSFRLWLSSSPHPDFPISILQASIKMTTEPPKVLDREGQMDNPCTSWLADAYWDNITELDKLTNFHGLMNSFEQYPRDWHLWYTNSSPEKAMLPGEWENACNEMQRMLIVRSLRQDRVAFCVTSFIVSNLGSRFIEPPVLNMKSVMEDSTPRSPLVFILSPGVDPTSALLQLAEHTGMAHRFHALSLGQGQAPIAARLLREGVNQGHWVFLANCHLSLSWMPNLDKLVEQLQVEDPHPSFRLWLSSSPHPDFPISILQASIKMTTEPPK
IRESfinder result
IRESfinder score
0.395715177
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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