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mmu_circWdhd1_537
Basic information of circular RNA
PanCircBase ID:
mmu_circWdhd1_537
mm39_Chr. Position ID:
chr14|47493560|47499038|-
Gene name:
Wdhd1
Transcript:
ENSMUST00000187531.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
15,14,13
Exon/intron offsets:
0,2417,5236
Genomic length:
5478
Exon/intron sizes in nt:
15,71,38,242
Flanking exon/introns:
chr14:47489489-47493560|chr14:47499038-47500895
Splice length:
537
Other database IDs:
CIRCpedia: MMU_CIRCpedia_215102, circAtlas: mmu-Wdhd1_0006
circAtlas: hsa-WDHD1_0011, CIRCpedia: HSA_CIRCpedia_12437
Human Ortholog IDs:
Mature spliced Sequence:
CAAGCTTCATTGCTTGCACTTCAGTTCTTGGGACTCAAGCAAAGAGTGGATGGTAGATATGCCCCAGAATGAGGACATCGAAGCCATATGCCTCGGTCTAGGCTGGGCCGCTGCTGCTACCACTGCCTTGCTCCTTCGACTGTTCACTATTGGAGGTGTTCAGAAAGAAGTCTTCTGCCTTCCTGGACCTGTGGTATCCATGGCAGGACACGGAGAACAGCTTTGCATTGTTTATCATAGAGGTACAGGGTTTGATGGAGATCAGTGCCTTGGAGTTCAACTACTCGAGCTGGGGCGGAAGAAAAACCAGGTTTTGCATGGTGACCCTCTTCCTCTCACACGGAAATCCTACCTCACATGGCTGGGCTTCTCTGCTGAAGGTACTCCCTGTTACGTGGATTCCGAAGGCTGTGTTCGAATGCTAAACAGAGGACTCGGGAATACATGGACTCCTGTATGCAACATAAGAGAGCACTGCAAAGGAAAATCTGACCACTACTGGGTGGTTGGTATCCATGAGAATCCCCAGCAGCTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAACATAAGAGAGCACTGCA
58.92
CGATGTCCTCATTCTGGGGC
60.53
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAACATAAGAGAGCACTGC
58.92
CGATGTCCTCATTCTGGGGC
60.53
160
PCR template sequence:
GGAATACATGGACTCCTGTATGCAACATAAGAGAGCACTGCAAAGGAAAATCTGACCACTACTGGGTGGTTGGTATCCATGAGAATCCCCAGCAGCTAAGCAAGCTTCATTGCTTGCACTTCAGTTCTTGGGACTCAAGCAAAGAGTGGATGGTAGATATGCCCCAGAATGAGGACATCGAAGCCATATGCCTCGGTCTA
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-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-135a-5p(1), mmu-miR-34c-5p(1), mmu-let-7c-5p(1), mmu-miR-15b-5p(1), mmu-miR-146a-5p(1), mmu-miR-199b-3p(1), mmu-miR-130b-3p(1), mmu-miR-721(1), mmu-miR-199a-3p(1), mmu-miR-34b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCAGCAGCTAAGCAAGCTTCATTGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCWDHD1_537_ORF_1
0.9239
0.091300374
0.985305754
1023
ORF sequence:
ATGGTAGATATGCCCCAGAATGAGGACATCGAAGCCATATGCCTCGGTCTAGGCTGGGCCGCTGCTGCTACCACTGCCTTGCTCCTTCGACTGTTCACTATTGGAGGTGTTCAGAAAGAAGTCTTCTGCCTTCCTGGACCTGTGGTATCCATGGCAGGACACGGAGAACAGCTTTGCATTGTTTATCATAGAGGTACAGGGTTTGATGGAGATCAGTGCCTTGGAGTTCAACTACTCGAGCTGGGGCGGAAGAAAAACCAGGTTTTGCATGGTGACCCTCTTCCTCTCACACGGAAATCCTACCTCACATGGCTGGGCTTCTCTGCTGAAGGTACTCCCTGTTACGTGGATTCCGAAGGCTGTGTTCGAATGCTAAACAGAGGACTCGGGAATACATGGACTCCTGTATGCAACATAAGAGAGCACTGCAAAGGAAAATCTGACCACTACTGGGTGGTTGGTATCCATGAGAATCCCCAGCAGCTAAGCAAGCTTCATTGCTTGCACTTCAGTTCTTGGGACTCAAGCAAAGAGTGGATGGTAGATATGCCCCAGAATGAGGACATCGAAGCCATATGCCTCGGTCTAGGCTGGGCCGCTGCTGCTACCACTGCCTTGCTCCTTCGACTGTTCACTATTGGAGGTGTTCAGAAAGAAGTCTTCTGCCTTCCTGGACCTGTGGTATCCATGGCAGGACACGGAGAACAGCTTTGCATTGTTTATCATAGAGGTACAGGGTTTGATGGAGATCAGTGCCTTGGAGTTCAACTACTCGAGCTGGGGCGGAAGAAAAACCAGGTTTTGCATGGTGACCCTCTTCCTCTCACACGGAAATCCTACCTCACATGGCTGGGCTTCTCTGCTGAAGGTACTCCCTGTTACGTGGATTCCGAAGGCTGTGTTCGAATGCTAAACAGAGGACTCGGGAATACATGGACTCCTGTATGCAACATAAGAGAGCACTGCAAAGGAAAATCTGACCACTACTGGGTGGTTGGTATCCATGAGAATCCCCAGCAGCTA
Peptide sequence:
MVDMPQNEDIEAICLGLGWAAAATTALLLRLFTIGGVQKEVFCLPGPVVSMAGHGEQLCIVYHRGTGFDGDQCLGVQLLELGRKKNQVLHGDPLPLTRKSYLTWLGFSAEGTPCYVDSEGCVRMLNRGLGNTWTPVCNIREHCKGKSDHYWVVGIHENPQQLSKLHCLHFSSWDSSKEWMVDMPQNEDIEAICLGLGWAAAATTALLLRLFTIGGVQKEVFCLPGPVVSMAGHGEQLCIVYHRGTGFDGDQCLGVQLLELGRKKNQVLHGDPLPLTRKSYLTWLGFSAEGTPCYVDSEGCVRMLNRGLGNTWTPVCNIREHCKGKSDHYWVVGIHENPQQL
IRESfinder result
IRESfinder score
0.483002271
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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