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mmu_circDcaf17_411
Basic information of circular RNA
PanCircBase ID:
mmu_circDcaf17_411
mm39_Chr. Position ID:
chr2|70886838|70903543|+
Gene name:
Dcaf17
Transcript:
ENSMUST00000130292.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,3858,6864,16626
Genomic length:
16705
Exon/intron sizes in nt:
104,91,137,79
Flanking exon/introns:
chr2:70885840-70886838|chr2:70903543-70905790
Splice length:
411
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_117096
Human Ortholog IDs:
Mature spliced Sequence:
GAGAGTACTAAATTTAAGAATGTTTGGACAACTCATTCCAAGTCACCTATAGCCTATGAGAGAGGAAGAATATATTTTGACAATTACCGGTGCTGTGTCAGCAGTGTTGCATCAGAGCCAAGAAAACTTTATGAAATGCCAAAATGTTCCAAATCAGAAAAAATTGAGGATGCTTTATTATGGGAATGCCCAGTGGGAGACATACTTCCTGACCCATCAGACTATAAATCCTCACTCATAGCCCTGACTGCTCATAATTGGCTGCTTCGTATATCCGCAACTACAGGGGAAGTCCTGGAGAAAATATACCTTGCTTCCTACTGCAAATTCAGGTACCTGAGCTGGGACACACCTCAGGAGGTCATCGCAGTGAAGTCGGCTCAGAACAAAGGCTCCGCAGCGGCTCGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTACCTGAGCTGGGACACAC
60.04
ACACAGCACCGGTAATTGTCA
60.2
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTACCTGAGCTGGGACACAC
60.04
TGACACAGCACCGGTAATTGT
60.2
179
PCR template sequence:
TGCTTCCTACTGCAAATTCAGGTACCTGAGCTGGGACACACCTCAGGAGGTCATCGCAGTGAAGTCGGCTCAGAACAAAGGCTCCGCAGCGGCTCGCCAGGAGAGTACTAAATTTAAGAATGTTTGGACAACTCATTCCAAGTCACCTATAGCCTATGAGAGAGGAAGAATATATTTTGACAATTACCGGTGCTGTGTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCGGCTCGCCAGGAGAGTACTAAAT
siRNA sets
ATTTAGTACTCTCCTGGCG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDCAF17_411_ORF_1
0.7156
0.077453775
0.792933999
687
ORF sequence:
ATGCCAAAATGTTCCAAATCAGAAAAAATTGAGGATGCTTTATTATGGGAATGCCCAGTGGGAGACATACTTCCTGACCCATCAGACTATAAATCCTCACTCATAGCCCTGACTGCTCATAATTGGCTGCTTCGTATATCCGCAACTACAGGGGAAGTCCTGGAGAAAATATACCTTGCTTCCTACTGCAAATTCAGGTACCTGAGCTGGGACACACCTCAGGAGGTCATCGCAGTGAAGTCGGCTCAGAACAAAGGCTCCGCAGCGGCTCGCCAGGAGAGTACTAAATTTAAGAATGTTTGGACAACTCATTCCAAGTCACCTATAGCCTATGAGAGAGGAAGAATATATTTTGACAATTACCGGTGCTGTGTCAGCAGTGTTGCATCAGAGCCAAGAAAACTTTATGAAATGCCAAAATGTTCCAAATCAGAAAAAATTGAGGATGCTTTATTATGGGAATGCCCAGTGGGAGACATACTTCCTGACCCATCAGACTATAAATCCTCACTCATAGCCCTGACTGCTCATAATTGGCTGCTTCGTATATCCGCAACTACAGGGGAAGTCCTGGAGAAAATATACCTTGCTTCCTACTGCAAATTCAGGTACCTGAGCTGGGACACACCTCAGGAGGTCATCGCAGTGAAGTCGGCTCAGAACAAAGGCTCCGCAGCGGCTCGCCAG
Peptide sequence:
MPKCSKSEKIEDALLWECPVGDILPDPSDYKSSLIALTAHNWLLRISATTGEVLEKIYLASYCKFRYLSWDTPQEVIAVKSAQNKGSAAARQESTKFKNVWTTHSKSPIAYERGRIYFDNYRCCVSSVASEPRKLYEMPKCSKSEKIEDALLWECPVGDILPDPSDYKSSLIALTAHNWLLRISATTGEVLEKIYLASYCKFRYLSWDTPQEVIAVKSAQNKGSAAARQ
IRESfinder result
IRESfinder score
0.626529805
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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