top of page
mmu_circWdpcp_1115
Basic information of circular RNA
PanCircBase ID:
mmu_circWdpcp_1115
mm39_Chr. Position ID:
chr11|21645113|21674636|+
Gene name:
Wdpcp
Transcript:
ENSMUST00000020568.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
9,10,11,12
Exon/intron offsets:
0,16348,25989,29399
Genomic length:
29523
Exon/intron sizes in nt:
192,610,189,124
Flanking exon/introns:
chr11:21641903-21645113|chr11:21674636-21698877
Splice length:
1115
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATTTCCTATTATGACATACCTGGCCCAGCCAACAGGACAATAGATCGTCACTTAGCTGTCAACTCCACTCAGGATCTAGTTGTTTGTTGGTGGCCGCTGGTCAGTGATGATGTTTGGCCTTGGACTCCAGTTTCTTCTGAGAAGGACAGAGCCAATATGCTGTTGCTGGGCTTTACTCAAGGAGGATTGGAGGTTCTAAGTTTTGTTCGCACAGAATGGAGTCCCCTGGATGTTCACTTCGGCACCAAACAACCTTATCAGGTGTTCACAGTGGAGTGCTCCGTCAGTGTAGACAAGGAGCCCATGGCTGACAGCTGTATTTATGAATCTGTCCGGAACAAACTCCACTGCGTGTCAGTTACCAGAATACCACTAAGATCGAAGGCCATCAGCTGCTGCAGGAACTCTACGGAAGACAAACTGATCGTGGGCTGTGAAGACTCTTCAGTAATTCTCTATGAAGCTCACCGTGGTGTGACTCTCCTGGCCCAGGCTGAACTTAGGCCTTCATTGATAAGCTGCCACCCAAGTGGCGCCATTCTTCTGGTTGGCAGCAACCAAGGGGAGCTACAAATTTTTGATATTGCTCTGTCCCCTATCAACATCCAGCTCTTGGCAGAAGATTACTCACCGAAGGAGACTCTGCAATTCAAGAAGTTCTTTGATGTTTCAAGCAGTCTTGTTCAAATGCAGTGGATGGCTCCTCCTGTTGTTTTCCAGAAGCCTAAAAGAGGAGAAATCTGTGATCTTCTCTTCCTCAGGTTCAACAAAGGACCTTTGGGTGTGCTACTGTTTAAACTTGGCATCCTCACACGAGGACAACTGGGCCTGGTAGACCTCATCTTACAGTACATTCACTACAGTGAGGTATATGAGGCCATCAGCATCCTGCGCAGCATGGACTGGGACACCCTGGGCCAGCAGTGTTTGATCGGCATGGGCACCATCGTGAACCATCTTCTTAGACAGAGGCTCACACCAGAGAGAGAAGCACAGCTTGAGGCGAGCCTTGGAACCTTCTATGCTCCAACAAGACCACTTCTGGATACAACTATTTTGGAATATAGAGAGCCAGTCAGCAAGTATGCCAGGAGGCTCTTCCACCACCTGCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTCCAACAAGACCACTTCT
59.51
TCCTGAGTGGAGTTGACAGC
59.32
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTCCAACAAGACCACTTCT
59.51
CCTGAGTGGAGTTGACAGCT
59.32
166
PCR template sequence:
CCTTCTATGCTCCAACAAGACCACTTCTGGATACAACTATTTTGGAATATAGAGAGCCAGTCAGCAAGTATGCCAGGAGGCTCTTCCACCACCTGCTCAGATTTCCTATTATGACATACCTGGCCCAGCCAACAGGACAATAGATCGTCACTTAGCTGTCAACTCCACTCAGGATCTAGTTGTTTGTTGGTGGCCGCTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-135a-5p(1), mmu-miR-217-5p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-433-5p(1), mmu-miR-494-3p(1), mmu-miR-673-5p(1), mmu-miR-5101(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCACCTGCTCAGATTTCCTATTATG
siRNA sets
TAATAGGAAATCTGAGCAG, AATAGGAAATCTGAGCAGG, CATAATAGGAAATCTGAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCWDPCP_1115_ORF_1
0.9365
0.165508683
0.987305084
1002
ORF sequence:
ATGCTGTTGCTGGGCTTTACTCAAGGAGGATTGGAGGTTCTAAGTTTTGTTCGCACAGAATGGAGTCCCCTGGATGTTCACTTCGGCACCAAACAACCTTATCAGGTGTTCACAGTGGAGTGCTCCGTCAGTGTAGACAAGGAGCCCATGGCTGACAGCTGTATTTATGAATCTGTCCGGAACAAACTCCACTGCGTGTCAGTTACCAGAATACCACTAAGATCGAAGGCCATCAGCTGCTGCAGGAACTCTACGGAAGACAAACTGATCGTGGGCTGTGAAGACTCTTCAGTAATTCTCTATGAAGCTCACCGTGGTGTGACTCTCCTGGCCCAGGCTGAACTTAGGCCTTCATTGATAAGCTGCCACCCAAGTGGCGCCATTCTTCTGGTTGGCAGCAACCAAGGGGAGCTACAAATTTTTGATATTGCTCTGTCCCCTATCAACATCCAGCTCTTGGCAGAAGATTACTCACCGAAGGAGACTCTGCAATTCAAGAAGTTCTTTGATGTTTCAAGCAGTCTTGTTCAAATGCAGTGGATGGCTCCTCCTGTTGTTTTCCAGAAGCCTAAAAGAGGAGAAATCTGTGATCTTCTCTTCCTCAGGTTCAACAAAGGACCTTTGGGTGTGCTACTGTTTAAACTTGGCATCCTCACACGAGGACAACTGGGCCTGGTAGACCTCATCTTACAGTACATTCACTACAGTGAGGTATATGAGGCCATCAGCATCCTGCGCAGCATGGACTGGGACACCCTGGGCCAGCAGTGTTTGATCGGCATGGGCACCATCGTGAACCATCTTCTTAGACAGAGGCTCACACCAGAGAGAGAAGCACAGCTTGAGGCGAGCCTTGGAACCTTCTATGCTCCAACAAGACCACTTCTGGATACAACTATTTTGGAATATAGAGAGCCAGTCAGCAAGTATGCCAGGAGGCTCTTCCACCACCTGCTCAGATTTCCTATTATGACATACCTGGCCCAGCCAACAGGACAATAG
Peptide sequence:
MLLLGFTQGGLEVLSFVRTEWSPLDVHFGTKQPYQVFTVECSVSVDKEPMADSCIYESVRNKLHCVSVTRIPLRSKAISCCRNSTEDKLIVGCEDSSVILYEAHRGVTLLAQAELRPSLISCHPSGAILLVGSNQGELQIFDIALSPINIQLLAEDYSPKETLQFKKFFDVSSSLVQMQWMAPPVVFQKPKRGEICDLLFLRFNKGPLGVLLFKLGILTRGQLGLVDLILQYIHYSEVYEAISILRSMDWDTLGQQCLIGMGTIVNHLLRQRLTPEREAQLEASLGTFYAPTRPLLDTTILEYREPVSKYARRLFHHLLRFPIMTYLAQPTGQ
IRESfinder result
IRESfinder score
0.636315089
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page