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mmu_ciWasf2_1845
Basic information of circular RNA
PanCircBase ID:
mmu_ciWasf2_1845
mm39_Chr. Position ID:
chr4|132917570|132919415|+
Gene name:
Wasf2
Transcript:
ENSMUST00000084241.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
1845
Exon/intron sizes in nt:
1845
Flanking exon/introns:
chr4:132917570-132919415
Splice length:
1845
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGTGATGCTGTGTAGCATTCTCTGGAGCAGCTGGGACCCTAGGGACAAAAGGCTCTGGCGTGGTACCTTTCCCACCATCTCAAGTCTGGCTGTAGGGTTTAGGCTAATACACCGTTAATCAATTACTTTTAAAAGCATCCATCTGGTGATTAAAATTTCTTAATAAGTCAAGAGACTGCGATTTAAACGAGGTGACTAGGCTGGTCTGACAGGGAAGGCCATGGTTTCTAATGATGATACTCTGCCAGAAGCCAGTACACCTGAAGGTCTCGGAGGAAAGTGGTCTTGGAAGCCCTCTCCCTCCAGAGCACACATGAAGGTTGTGCTGAAGAGCTGGGCTGGGCACGGCACGGGAGGTGCAGCGCAGGCAAGCTCTGCAGGTTCCCAGAACAAATTCTCAGCCAGGCTTGGAAGAGGGATAGCCAAAGGACTGAATGCAGACCTCAGAGTCAGTATGGGAAAGGTTGCTGGGCCACTGTGGAGACAGATATATCTCTCTGAAAAAGTGGGAGATGGCATCCTGACCCATTTCCCAATACCAAATCACGCTGGAGGTTTAAAGAGGCAGAATGGTTTTAAAACCTAGTTTGATGCTTATCCTGATGTCTGACCCCTGTGACATTCAAAGCCAAATCACCATGACTACCTAGTGTGAGAGTCACCCTGGCTTTTCCTCTAAATTCATTGCTCCTGGCAGTCAGAGATGTGCACAGCCCATACTAGGCACTGAGTACTGATAAAAGGGAAGAGCTCTTGATTTTAGAATAACTACCATGGAAATCTTGATACATGTGACACTTGTTCTTCCTGGATTCAGAGGTTTGTTTCATAAGCATAGGAAGATGGTGGAAATGAACCTTTCTACAGAAAAACCAGTAGTAAAGGGGCCTTCATTGATCTCACTGTCCAGTAGGGGGCCATTTTGTTCCCCAGTCCCATCCTGTTTTGATAGGCACATGGCATAGGATTAGTGACTCCTATGGCCATAAATGCCAACTGTCAAAAGTGTATGTCTGATTTTGAGGCTTGGGTGGTGAAGATGAGCTAGCCGCCCTCCACCCCTATATCAACTCCCCCCCCCCCAACTTCCTGAAGGTTTGGAATTGGCTGTGTGGCTAGGCTATATCATCTGACTTATTTACGTGCCCACAATTCTGATCCTGGGACCTGTTGGGTGAGCTCTGTAGGACCCAGCAGTGGCACAGAGGAGAGGGGCAGGGCGGGCCAGTTTTGCTAGTTGGTGCCCATGGGCTTGAGCTAGTGTGGAGGCTCCCTGCCTTGTGTGCACGTGTATGAAGGGTTAGTGCTCATCCAGAGCCAGCTCACCCAGGGCCAAAGGCGCTGAAGAATGGGTTTCCATGCAGCCAGCTCTAAAACAATAATTATTTTTTCCCCCTTTCTTTCATTATTTTCAAGACAGGGTTTCTCTGTGTAGCCCTGGCAGTCCTGGAACTCACTCTATGGACCAGGCTGACCTTGAACTCAGCTATCCCCTGCTTCTGCCTCCTGAGTTCTGGGATTAAAGGTGTTTGCCACCGCTGCCCAGGCTTCTCGAATCCTGCTTTAAGCATCAGCTCATGTGATAAAGGACGTGGTAGAGACTGTCATGACTGCCTCATGGTATACCACCATACCTAGCCTAAAGTATAATCTTGGTGTAATAGGAAACACATGGAATCTCCTTATTTTGCTCCACCATAATAACCTTTGTGTCAGATGCACTTATGTGATATCTATTAATAAGAAAAGGAGAGCACTCAAGCTCTGGATGTTTAAGCATGTTTTGGCACTTTGGATGGACCTCGAGTCTTTAAAAGACAACTGACATTGGTATGTCGTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCACTTTGGATGGACCTCGA
60.04
GCCAGACTTGAGATGGTGGG
60.39
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCACTTTGGATGGACCTC
59.96
GCCAGACTTGAGATGGTGGG
60.39
151
PCR template sequence:
AGAAAAGGAGAGCACTCAAGCTCTGGATGTTTAAGCATGTTTTGGCACTTTGGATGGACCTCGAGTCTTTAAAAGACAACTGACATTGGTATGTCGTCAGGTAGGTGATGCTGTGTAGCATTCTCTGGAGCAGCTGGGACCCTAGGGACAAAAGGCTCTGGCGTGGTACCTTTCCCACCATCTCAAGTCTGGCTGTAGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
18
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-223-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-106b-5p(1), mmu-miR-328-3p(1), mmu-miR-196a-5p(1), mmu-miR-709(1), mmu-miR-138-5p(1), mmu-miR-128-3p(1), mmu-miR-149-5p(1), mmu-miR-383-5p(1), mmu-miR-540-3p(1), mmu-miR-193b-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGTATGTCGTCAGGTAGGTGATGCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.661624546
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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