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mmu_circDock1_224
Basic information of circular RNA
PanCircBase ID:
mmu_circDock1_224
mm39_Chr. Position ID:
chr7|134475786|134478044|+
Gene name:
Dock1
Transcript:
ENSMUST00000084488.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
26,27
Exon/intron offsets:
0,2162
Genomic length:
2258
Exon/intron sizes in nt:
128,96
Flanking exon/introns:
chr7:134453332-134475786|chr7:134478044-134592250
Splice length:
224
Other database IDs:
circBase: mmu_circ_0001645, CIRCpedia: MMU_CIRCpedia_8188, circAtlas: mmu-Dock1_0010
circBase: hsa_circ_0002456, circAtlas: hsa-DOCK1_0013, CIRCpedia: HSA_CIRCpedia_948
Human Ortholog IDs:
Mature spliced Sequence:
ACTGCAGAGAGATCCTGCTCCCCATGATGACAGACCAGCTCAAGTACCACCTGGAGAGGCAGGAGGAGCTGGAGGCTTGTTGCCAGCTGCTTAGCAACATCCTGGAGGTGCTATACCGGAAGGATGTGGGACCGACTCAGAGGCACGTCCAGATCATCATGGAGACGCTGCTTAGGACTGTGAACAGGACGGTCATTTCCATGGGGCGGGACTCCGAGCTCATT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAGAGGCACGTCCAGATC
59.9
TGCCTCTCCAGGTGGTACTT
60.18
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAGAGGCACGTCCAGATC
59.9
GCCTCTCCAGGTGGTACTTG
59.75
149
PCR template sequence:
TGTGGGACCGACTCAGAGGCACGTCCAGATCATCATGGAGACGCTGCTTAGGACTGTGAACAGGACGGTCATTTCCATGGGGCGGGACTCCGAGCTCATTACTGCAGAGAGATCCTGCTCCCCATGATGACAGACCAGCTCAAGTACCACCTGGAGAGGCAGGAGGAGCTGGAGGCTTGTTGCCAGCTGCTTAGCAACAT
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-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-207(1), mmu-miR-1199-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
CTCCGAGCTCATTACTGCAGAGAGAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDOCK1_224_ORF_1
1.2322
0.406690799
0.585640461
228
ORF sequence:
ATGATGACAGACCAGCTCAAGTACCACCTGGAGAGGCAGGAGGAGCTGGAGGCTTGTTGCCAGCTGCTTAGCAACATCCTGGAGGTGCTATACCGGAAGGATGTGGGACCGACTCAGAGGCACGTCCAGATCATCATGGAGACGCTGCTTAGGACTGTGAACAGGACGGTCATTTCCATGGGGCGGGACTCCGAGCTCATTACTGCAGAGAGATCCTGCTCCCCATGA
Peptide sequence:
MMTDQLKYHLERQEELEACCQLLSNILEVLYRKDVGPTQRHVQIIMETLLRTVNRTVISMGRDSELITAERSCSP
IRESfinder result
IRESfinder score
0.347494878
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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