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mmu_circWdhd1_812
Basic information of circular RNA
PanCircBase ID:
mmu_circWdhd1_812
mm39_Chr. Position ID:
chr14|47500895|47506219|-
Gene name:
Wdhd1
Transcript:
ENSMUST00000187531.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
12,11,10,9,8
Exon/intron offsets:
0,2235,3542,4633,5217
Genomic length:
5324
Exon/intron sizes in nt:
18,51,85,19,31,42,107
Flanking exon/introns:
chr14:47499038-47500895|chr14:47506219-47507591
Splice length:
812
Other database IDs:
circAtlas: mmu-Wdhd1_0019
circAtlas: hsa-WDHD1_0047
Human Ortholog IDs:
Mature spliced Sequence:
ACACTCAATATAGTAACCTGGTCTCCCTGTGGGCAGTATTTGGCTGCAGGTGCTATTAATGGCTTAATTGTAGTTTGGAATGTGGAAACCAAAGACTGCATGGAAAGGGTAAAACATGAGAAAGGTTATGCAATTTGTGGCCTGGCCTGGCATCCCACTTGTAGTCGGATATGTTATACTGATGTGGAAGGAAACCTTGGAGTCCTGGAAAATGTTTGTGACCTCAGTGGAAAGGTGTCGAGCAATAAGGTATCTAGTAGAGTGGAAAAGGACTACAATGATCTTTTTGATGGAGATGATACAAGTAGTGCTGGCGATTTTCTAAACGACAATGCGGTTGAGATCCCTTCTTTTTCAAAGGGCATTATAAATGAGGATGACGATAATGATGACATCATGCTGGCTGCAGATCATGACTTGGGAGACGATGAAAACTCAGTTGATGTTACAATGCTAAAAGCTGATCTTTCTCACAAAGAGGAAGGGGACGATGATCAGGCACGAAGTATTCACAACCTCCCCCTTATAAGACCCCAAAGGCCATTTTATGATGGGCCCATGCCAACCCCACGACAAAAGCCCTTCCAGTCAAGTTCAACGCCCTTGCATCTCTCTCACAGATTCATGGTGTGGAACTCTGTTGGGATTATTCGCTGCTATAACGACGATCAAGACAGTGCCATAGACGTGGAGTTCCATGACACCTCTATCCATCATGCAACACATCTATTAAATGCTTTCAATTACACAATGGGAACTCTTTCCCATGAAGCTATTTTGTTGGCATGTGAAAGTGCTGATGAATTAGCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCATGAAGCTATTTTGTTGGCA
60.06
TGCAGTCTTTGGTTTCCACA
57.86
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAACTCTTTCCCATGAAGCT
57.92
TGCAGTCTTTGGTTTCCACA
57.86
159
PCR template sequence:
ATCATGCAACACATCTATTAAATGCTTTCAATTACACAATGGGAACTCTTTCCCATGAAGCTATTTTGTTGGCATGTGAAAGTGCTGATGAATTAGCAAGACACTCAATATAGTAACCTGGTCTCCCTGTGGGCAGTATTTGGCTGCAGGTGCTATTAATGGCTTAATTGTAGTTTGGAATGTGGAAACCAAAGACTGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-183-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-1198-5p(1), mmu-miR-300-3p(1), mmu-miR-335-3p(1), mmu-miR-3065-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGAATTAGCAAGACACTCAATATAG
siRNA sets
CTATATTGAGTGTCTTGCT, ATATTGAGTGTCTTGCTAA, TATATTGAGTGTCTTGCTA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCWDHD1_812_ORF_1
1.0916
0.106422883
0.918571995
726
ORF sequence:
ATGGAAAGGGTAAAACATGAGAAAGGTTATGCAATTTGTGGCCTGGCCTGGCATCCCACTTGTAGTCGGATATGTTATACTGATGTGGAAGGAAACCTTGGAGTCCTGGAAAATGTTTGTGACCTCAGTGGAAAGGTGTCGAGCAATAAGGTATCTAGTAGAGTGGAAAAGGACTACAATGATCTTTTTGATGGAGATGATACAAGTAGTGCTGGCGATTTTCTAAACGACAATGCGGTTGAGATCCCTTCTTTTTCAAAGGGCATTATAAATGAGGATGACGATAATGATGACATCATGCTGGCTGCAGATCATGACTTGGGAGACGATGAAAACTCAGTTGATGTTACAATGCTAAAAGCTGATCTTTCTCACAAAGAGGAAGGGGACGATGATCAGGCACGAAGTATTCACAACCTCCCCCTTATAAGACCCCAAAGGCCATTTTATGATGGGCCCATGCCAACCCCACGACAAAAGCCCTTCCAGTCAAGTTCAACGCCCTTGCATCTCTCTCACAGATTCATGGTGTGGAACTCTGTTGGGATTATTCGCTGCTATAACGACGATCAAGACAGTGCCATAGACGTGGAGTTCCATGACACCTCTATCCATCATGCAACACATCTATTAAATGCTTTCAATTACACAATGGGAACTCTTTCCCATGAAGCTATTTTGTTGGCATGTGAAAGTGCTGATGAATTAGCAAGACACTCAATATAG
Peptide sequence:
MERVKHEKGYAICGLAWHPTCSRICYTDVEGNLGVLENVCDLSGKVSSNKVSSRVEKDYNDLFDGDDTSSAGDFLNDNAVEIPSFSKGIINEDDDNDDIMLAADHDLGDDENSVDVTMLKADLSHKEEGDDDQARSIHNLPLIRPQRPFYDGPMPTPRQKPFQSSSTPLHLSHRFMVWNSVGIIRCYNDDQDSAIDVEFHDTSIHHATHLLNAFNYTMGTLSHEAILLACESADELARHSI
IRESfinder result
IRESfinder score
0.450418309
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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