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mmu_circDennd1a_393
Basic information of circular RNA
PanCircBase ID:
mmu_circDennd1a_393
mm39_Chr. Position ID:
chr2|37873071|37933431|-
Gene name:
Dennd1a
Transcript:
ENSMUST00000102787.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
11,10,9,8,7
Exon/intron offsets:
0,20314,38296,56092,60279
Genomic length:
60360
Exon/intron sizes in nt:
46,101,111,54,81
Flanking exon/introns:
chr2:37851754-37873071|chr2:37933431-37938736
Splice length:
393
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAAAGTCAGTGGAATGAACTTCTTGAAACTCTGCACAGACTTCCCATCCCTGATCCTGGAGTGTCTGTTCACCTCAGTGTGCATTCTTACTTCACTGTGCCTGATAGCAGAGAGCTTCCCAGCATACCTGAGAATAGAAATCTGACAGAATATTTTGTGGCTGTGGATGTGAACAACATGTTGCATCTGTACGCCAGCATGCTGTATGAACGCCGGATCCTCATCATCTGCAGCAAGCTCAGTACATTGACGGCCTGCATCCACGGCTCAGCTGCCATGCTCTACCCTATGTACTGGCAGCATGTGTACATCCCTGTGCTGCCCCCACATCTGCTGGACTACTGCTGTGCTCCCATGCCCTACCTCATAGGAATCCATTTAAGTTTAATGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCAGCATGTGTACATCCCT
60.11
CTCCAGGATCAGGGATGGGA
60.1
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGTACATCCCTGTGCTGC
60.32
CTCCAGGATCAGGGATGGGA
60.1
152
PCR template sequence:
CTGGCAGCATGTGTACATCCCTGTGCTGCCCCCACATCTGCTGGACTACTGCTGTGCTCCCATGCCCTACCTCATAGGAATCCATTTAAGTTTAATGGAGGAAAGTCAGTGGAATGAACTTCTTGAAACTCTGCACAGACTTCCCATCCCTGATCCTGGAGTGTCTGTTCACCTCAGTGTGCATTCTTACTTCACTGTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-miR-128-3p(1), mmu-let-7d-5p(1), mmu-miR-136-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGTTTAATGGAGGAAAGTCAGTGGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDENND1A_393_ORF_1
1.1084
0.270777747
0.909007803
609
ORF sequence:
ATGTTGCATCTGTACGCCAGCATGCTGTATGAACGCCGGATCCTCATCATCTGCAGCAAGCTCAGTACATTGACGGCCTGCATCCACGGCTCAGCTGCCATGCTCTACCCTATGTACTGGCAGCATGTGTACATCCCTGTGCTGCCCCCACATCTGCTGGACTACTGCTGTGCTCCCATGCCCTACCTCATAGGAATCCATTTAAGTTTAATGGAGGAAAGTCAGTGGAATGAACTTCTTGAAACTCTGCACAGACTTCCCATCCCTGATCCTGGAGTGTCTGTTCACCTCAGTGTGCATTCTTACTTCACTGTGCCTGATAGCAGAGAGCTTCCCAGCATACCTGAGAATAGAAATCTGACAGAATATTTTGTGGCTGTGGATGTGAACAACATGTTGCATCTGTACGCCAGCATGCTGTATGAACGCCGGATCCTCATCATCTGCAGCAAGCTCAGTACATTGACGGCCTGCATCCACGGCTCAGCTGCCATGCTCTACCCTATGTACTGGCAGCATGTGTACATCCCTGTGCTGCCCCCACATCTGCTGGACTACTGCTGTGCTCCCATGCCCTACCTCATAGGAATCCATTTAAGTTTAATGGAG
Peptide sequence:
MLHLYASMLYERRILIICSKLSTLTACIHGSAAMLYPMYWQHVYIPVLPPHLLDYCCAPMPYLIGIHLSLMEESQWNELLETLHRLPIPDPGVSVHLSVHSYFTVPDSRELPSIPENRNLTEYFVAVDVNNMLHLYASMLYERRILIICSKLSTLTACIHGSAAMLYPMYWQHVYIPVLPPHLLDYCCAPMPYLIGIHLSLME
IRESfinder result
IRESfinder score
0.678585192
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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