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mmu_circLyst_746
Basic information of circular RNA
PanCircBase ID:
mmu_circLyst_746
mm39_Chr. Position ID:
chr13|13853547|13857806|+
Gene name:
Lyst
Transcript:
ENSMUST00000110559.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
24,25,26,27
Exon/intron offsets:
0,1110,2329,4092
Genomic length:
4259
Exon/intron sizes in nt:
178,170,231,167
Flanking exon/introns:
chr13:13852849-13853547|chr13:13857806-13858542
Splice length:
746
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TGTCATTGAAGACTGTCTGATACCTATCTGCTGTGGATTATATGAACTCTTAAGTGGGGTTCTTCTTGTCCTGCCTGATGCTATGCTTGAAGATGTGATGGACAGGATTATTCAAGCAGATATTCTTCTAGTCCTTGTTAACCACCCATCACCTGCTATCCAGCAAGGAGTAATTAAACTGTTACATGCATACATTAATAGAGCATCAAAGGAGCAAAAGGACAAGTTTCTGAAGAACCGTGGCTTTTCCTTATTAGCCAACCAGTTGTATCTTCATAGGGGAACTCAGGAGTTGTTGGAGTGCTTTGTTGAAATGTTCTTTGGTCGACCGATTGGCCTGGATGAAGAATTTGATCTGGAGGAAGTGAAGCACATGGAACTGTTCCAGAAGTGGTCTGTCATTCCCGTTCTCGGACTAATAGAGACCTCTCTCTATGACAATGTCCTCTTGCACAATGCTCTTTTACTTCTTCTGCAAGTTTTAAACTCTTGTTCCAAGGTAGCAGACATGCTACTGGACAATGGTCTACTCTATGTATTATGTAATACAGTAGCAGCCCTGAATGGATTAGAAAAGAACATTCCTGTGAACGAATACAAATTGCTCGCATGTGATATACAGCAGCTTTTCATAGCAGTTACAATTCATGCTTGCAGTTCCTCAGGCACACAGTATTTTAGAGTGATTGAAGACCTTATTGTACTTCTTGGATATCTTCATAATAGCAAAAACAAGAGGACACAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGTTCCTCAGGCACACAGT
59.89
GCAGGACAAGAAGAACCCCA
59.89
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGTTCCTCAGGCACACAGT
59.89
AGGCAGGACAAGAAGAACCC
59.6
168
PCR template sequence:
CATGCTTGCAGTTCCTCAGGCACACAGTATTTTAGAGTGATTGAAGACCTTATTGTACTTCTTGGATATCTTCATAATAGCAAAAACAAGAGGACACAAATGTCATTGAAGACTGTCTGATACCTATCTGCTGTGGATTATATGAACTCTTAAGTGGGGTTCTTCTTGTCCTGCCTGATGCTATGCTTGAAGATGTGATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-301a-3p(2), mmu-miR-429-3p(1), mmu-miR-499-5p(1), mmu-miR-369-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGAGGACACAAATGTCATTGAAGAC
siRNA sets
TCTTCAATGACATTTGTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLYST_746_ORF_1
1.0236
-0.000558881
0.826244476
684
ORF sequence:
ATGCTTGAAGATGTGATGGACAGGATTATTCAAGCAGATATTCTTCTAGTCCTTGTTAACCACCCATCACCTGCTATCCAGCAAGGAGTAATTAAACTGTTACATGCATACATTAATAGAGCATCAAAGGAGCAAAAGGACAAGTTTCTGAAGAACCGTGGCTTTTCCTTATTAGCCAACCAGTTGTATCTTCATAGGGGAACTCAGGAGTTGTTGGAGTGCTTTGTTGAAATGTTCTTTGGTCGACCGATTGGCCTGGATGAAGAATTTGATCTGGAGGAAGTGAAGCACATGGAACTGTTCCAGAAGTGGTCTGTCATTCCCGTTCTCGGACTAATAGAGACCTCTCTCTATGACAATGTCCTCTTGCACAATGCTCTTTTACTTCTTCTGCAAGTTTTAAACTCTTGTTCCAAGGTAGCAGACATGCTACTGGACAATGGTCTACTCTATGTATTATGTAATACAGTAGCAGCCCTGAATGGATTAGAAAAGAACATTCCTGTGAACGAATACAAATTGCTCGCATGTGATATACAGCAGCTTTTCATAGCAGTTACAATTCATGCTTGCAGTTCCTCAGGCACACAGTATTTTAGAGTGATTGAAGACCTTATTGTACTTCTTGGATATCTTCATAATAGCAAAAACAAGAGGACACAAATGTCATTGAAGACTGTCTGA
Peptide sequence:
MLEDVMDRIIQADILLVLVNHPSPAIQQGVIKLLHAYINRASKEQKDKFLKNRGFSLLANQLYLHRGTQELLECFVEMFFGRPIGLDEEFDLEEVKHMELFQKWSVIPVLGLIETSLYDNVLLHNALLLLLQVLNSCSKVADMLLDNGLLYVLCNTVAALNGLEKNIPVNEYKLLACDIQQLFIAVTIHACSSSGTQYFRVIEDLIVLLGYLHNSKNKRTQMSLKTV
IRESfinder result
IRESfinder score
0.822875169
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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