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mmu_circDennd6a_535
Basic information of circular RNA
PanCircBase ID:
mmu_circDennd6a_535
mm39_Chr. Position ID:
chr14|26329244|26340559|+
Gene name:
Dennd6a
Transcript:
ENSMUST00000224248.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
8,9,10,11,12,13
Exon/intron offsets:
0,446,3877,8501,8804,11225
Genomic length:
11315
Exon/intron sizes in nt:
123,96,95,66,65,90
Flanking exon/introns:
chr14:26328115-26329244|chr14:26340559-26347860
Splice length:
535
Other database IDs:
CIRCpedia: MMU_CIRCpedia_14799, circAtlas: mmu-Dennd6a_0004
circAtlas: hsa-DENND6A_0008, CIRCpedia: HSA_CIRCpedia_138423
Human Ortholog IDs:
Mature spliced Sequence:
GTGTTTCTGCCCAGTTTTTCTTCACAGTCAGATGCTCTGGGAGTTGGTGCTCTTGGGAGAGCCCCTGGTGGTCATGGCGCCATCGCCGTCAGAATCTTCAGAAACTGTACTGGCTCTTGTTAACTGTATCTCTCCATTAAAGTACTTTAGTGATTTTCGGCCTTACTTCACGATTCATGATAGTGAATTCAAAGAATATACTACCCGTACTCAAGCTCCGCCCTCAGTCATCTTAGGAGTAACCAACCCCTTTTTTGCTAAAACACTACAGCACTGGCCACACATTATTCGAATAGGAGATCTTAAACCTGCAGGTGAAATTCCTAAGCAAGTTAAAGTGAAAAAGCTGAAGAACCTAAAAACTCTGGATTCTAAACCTGGAGTTTATACTTCTTACAAGCCATATCTAAACAGAGATGAGGAGATCATAAAACAACTTCAGAAGGGTATACAGCAGAAGCGTCCTTCTGAGGCCCAAAGTGTTATTCTCCGGCGCTATTTTTTGGAACTAACACAAAGTTTCATCATTCCATTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTCTGAGGCCCAAAGTGT
59.89
AAGATTCTGACGGCGATGGC
60.81
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGTGTTATTCTCCGGCGCT
59.75
AAGATTCTGACGGCGATGGC
60.81
156
PCR template sequence:
ACTTCAGAAGGGTATACAGCAGAAGCGTCCTTCTGAGGCCCAAAGTGTTATTCTCCGGCGCTATTTTTTGGAACTAACACAAAGTTTCATCATTCCATTAGTGTTTCTGCCCAGTTTTTCTTCACAGTCAGATGCTCTGGGAGTTGGTGCTCTTGGGAGAGCCCCTGGTGGTCATGGCGCCATCGCCGTCAGAATCTTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-20a-5p(1), mmu-miR-335-5p(1), mmu-miR-185-5p(1), mmu-miR-382-5p(1), mmu-miR-1187(1)
siRNAs for circular RNA silencing
Junction sequence
CATCATTCCATTAGTGTTTCTGCCCA
siRNA sets
TGGGCAGAAACACTAATGG,AAACACTAATGGAATGATG,AGAAACACTAATGGAATGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDENND6A_535_ORF_1
0.8206
0.036383437
0.717335635
627
ORF sequence:
ATGCTCTGGGAGTTGGTGCTCTTGGGAGAGCCCCTGGTGGTCATGGCGCCATCGCCGTCAGAATCTTCAGAAACTGTACTGGCTCTTGTTAACTGTATCTCTCCATTAAAGTACTTTAGTGATTTTCGGCCTTACTTCACGATTCATGATAGTGAATTCAAAGAATATACTACCCGTACTCAAGCTCCGCCCTCAGTCATCTTAGGAGTAACCAACCCCTTTTTTGCTAAAACACTACAGCACTGGCCACACATTATTCGAATAGGAGATCTTAAACCTGCAGGTGAAATTCCTAAGCAAGTTAAAGTGAAAAAGCTGAAGAACCTAAAAACTCTGGATTCTAAACCTGGAGTTTATACTTCTTACAAGCCATATCTAAACAGAGATGAGGAGATCATAAAACAACTTCAGAAGGGTATACAGCAGAAGCGTCCTTCTGAGGCCCAAAGTGTTATTCTCCGGCGCTATTTTTTGGAACTAACACAAAGTTTCATCATTCCATTAGTGTTTCTGCCCAGTTTTTCTTCACAGTCAGATGCTCTGGGAGTTGGTGCTCTTGGGAGAGCCCCTGGTGGTCATGGCGCCATCGCCGTCAGAATCTTCAGAAACTGTACTGGCTCTTGTTAA
Peptide sequence:
MLWELVLLGEPLVVMAPSPSESSETVLALVNCISPLKYFSDFRPYFTIHDSEFKEYTTRTQAPPSVILGVTNPFFAKTLQHWPHIIRIGDLKPAGEIPKQVKVKKLKNLKTLDSKPGVYTSYKPYLNRDEEIIKQLQKGIQQKRPSEAQSVILRRYFLELTQSFIIPLVFLPSFSSQSDALGVGALGRAPGGHGAIAVRIFRNCTGSC
IRESfinder result
IRESfinder score
0.731489205
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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