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mmu_circWdyhv1_425
Basic information of circular RNA
PanCircBase ID:
mmu_circWdyhv1_425
mm39_Chr. Position ID:
chr15|58011729|58017100|+
Gene name:
Wdyhv1
Transcript:
ENSMUST00000067563.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,2272,4263,5246
Genomic length:
5371
Exon/intron sizes in nt:
100,51,149,125
Flanking exon/introns:
chr15:58004977-58011729|chr15:58017100-58021297
Splice length:
425
Other database IDs:
circAtlas: mmu-Wdyhv1_0004
circBase: hsa_circ_0135666, circAtlas: hsa-WDYHV1_0001, CIRCpedia: HSA_CIRCpedia_59990
Human Ortholog IDs:
Mature spliced Sequence:
TGAGGAAAACATTTGGAAGCTCTGTGAGTACATCAAGACACACAACCAGTATCTGTTGGAGGAGTGCTATGCAGTCTTCATATCAAATGAGAAGAAGATGGTACCTATTTGGAAACAGCAGGCAAGACCTGAGAATGGACCTGTGATCTGGGACTACCATGTGGTTCTGCTTCATGTGTCAAGGGAAGGACAAAGCTTCATTTATGATCTTGACACTATTTTGCCATTTCCCTGCCCTTTCGACATTTACATAGAAGATGCCCTTAAGTCTGATGATGACATTCATCTGCAGTTTAGGAGGAAATTTAGAGTGGTTCGTGCTGACTCCTACTTGAAGCACTTCGCTTCTGACCGGTCTCACATGAAAGACTCCAGTGGGAACTGGAGAGAGCCTCCCCCAGAGTACCCCTGCATTGAAACTGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTCTGACCGGTCTCACAT
59.75
GACTGCATAGCACTCCTCCA
59.17
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTCTGACCGGTCTCACAT
59.75
TGCATAGCACTCCTCCAACA
59.02
155
PCR template sequence:
TCCTACTTGAAGCACTTCGCTTCTGACCGGTCTCACATGAAAGACTCCAGTGGGAACTGGAGAGAGCCTCCCCCAGAGTACCCCTGCATTGAAACTGGAGTGAGGAAAACATTTGGAAGCTCTGTGAGTACATCAAGACACACAACCAGTATCTGTTGGAGGAGTGCTATGCAGTCTTCATATCAAATGAGAAGAAGATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-326-3p(1), mmu-miR-431-5p(1), mmu-miR-26b-5p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTGAAACTGGAGTGAGGAAAACATT
siRNA sets
TTTTCCTCACTCCAGTTTC, TTTCCTCACTCCAGTTTCA, AATGTTTTCCTCACTCCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCWDYHV1_425_ORF_1
0.5604
0.011181652
0.319816528
474
ORF sequence:
ATGGTACCTATTTGGAAACAGCAGGCAAGACCTGAGAATGGACCTGTGATCTGGGACTACCATGTGGTTCTGCTTCATGTGTCAAGGGAAGGACAAAGCTTCATTTATGATCTTGACACTATTTTGCCATTTCCCTGCCCTTTCGACATTTACATAGAAGATGCCCTTAAGTCTGATGATGACATTCATCTGCAGTTTAGGAGGAAATTTAGAGTGGTTCGTGCTGACTCCTACTTGAAGCACTTCGCTTCTGACCGGTCTCACATGAAAGACTCCAGTGGGAACTGGAGAGAGCCTCCCCCAGAGTACCCCTGCATTGAAACTGGAGTGAGGAAAACATTTGGAAGCTCTGTGAGTACATCAAGACACACAACCAGTATCTGTTGGAGGAGTGCTATGCAGTCTTCATATCAAATGAGAAGAAGATGGTACCTATTTGGAAACAGCAGGCAAGACCTGAGAATGGACCTGTGA
Peptide sequence:
MVPIWKQQARPENGPVIWDYHVVLLHVSREGQSFIYDLDTILPFPCPFDIYIEDALKSDDDIHLQFRRKFRVVRADSYLKHFASDRSHMKDSSGNWREPPPEYPCIETGVRKTFGSSVSTSRHTTSICWRSAMQSSYQMRRRWYLFGNSRQDLRMDL
IRESfinder result
IRESfinder score
0.737402163
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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