top of page
mmu_circAls2_582
Basic information of circular RNA
PanCircBase ID:
mmu_circAls2_582
mm39_Chr. Position ID:
chr1|59231047|59238350|-
Gene name:
Als2
Transcript:
ENSMUST00000027178.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
13,12,11,10
Exon/intron offsets:
0,2144,4302,7131
Genomic length:
7303
Exon/intron sizes in nt:
163,66,181,172
Flanking exon/introns:
chr1:59227025-59231047|chr1:59238350-59242073
Splice length:
582
Other database IDs:
circBase: mmu_circ_0008828, CIRCpedia: MMU_CIRCpedia_24418, circAtlas: mmu-Als2_0004
circBase: hsa_circ_0118658, circAtlas: hsa-ALS2_0004, CIRCpedia: HSA_CIRCpedia_93325
Human Ortholog IDs:
Mature spliced Sequence:
CTTGGATACATAAGCAGAGTAACAGCAGGAAAAGATAGCTATCTAGCCTTGGTGGATAAGAACATCATGGGATACATCGCCAGTCTCCATGAGTTGGCTTCTACAGAAAGACGGTTTTACTCAAAACTGAGCGAAATCAAATCACAGATACTTAGGCCTCTTCTCAGTTTAGAAAATTTGGGCACAGTGACCACTGTCCAGCTGTTGCAGGAAGTTGCCAGCCGGTTCAGCAAGTTGTGTTACCTCATTGGGCAGCATGGAGCCTCACTAAGCAGCTACCTACAGGGCATGAAGGAAGCCAGCAGCCTGGTCATCATGAAGCACTCAAGTCTTTTCCTGGACAGCTACACAGAGTACTGCACATCAGTTTCAAATTTCCTGGTTATGGGAGGATTCCAGCTTCTTGCTAAGCCTGCCATTGATTTCCTAAATAAAAACCAAGAACTCTTGCAAGATTTGTCAGAAGTGAATGATGAGAACACTCAGTTGATGGAAATCCTGAACATGCTGTTTTTCTTGCCAATCAGACGACTTCATAATTATGCAAAAGTTTTGCTAAAGCTTGCCACTTGCTTTGAAGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTGCCAATCAGACGACTTCA
59.96
CAACTCATGGAGACTGGCGA
59.75
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTGCCAATCAGACGACTTCA
59.96
GGAGACTGGCGATGTATCCC
59.68
156
PCR template sequence:
TCAGTTGATGGAAATCCTGAACATGCTGTTTTTCTTGCCAATCAGACGACTTCATAATTATGCAAAAGTTTTGCTAAAGCTTGCCACTTGCTTTGAAGTGCTTGGATACATAAGCAGAGTAACAGCAGGAAAAGATAGCTATCTAGCCTTGGTGGATAAGAACATCATGGGATACATCGCCAGTCTCCATGAGTTGGCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-3105-3p(2), mmu-miR-31-5p(1), mmu-miR-205-5p(1), mmu-miR-433-3p(1), mmu-miR-382-3p(1), mmu-miR-182-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGCTTTGAAGTGCTTGGATACATAA
siRNA sets
TATGTATCCAAGCACTTCA, TTATGTATCCAAGCACTTC, TATCCAAGCACTTCAAAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCALS2_582_ORF_1
0.9373
0.127583496
0.992738511
1098
ORF sequence:
ATGGGATACATCGCCAGTCTCCATGAGTTGGCTTCTACAGAAAGACGGTTTTACTCAAAACTGAGCGAAATCAAATCACAGATACTTAGGCCTCTTCTCAGTTTAGAAAATTTGGGCACAGTGACCACTGTCCAGCTGTTGCAGGAAGTTGCCAGCCGGTTCAGCAAGTTGTGTTACCTCATTGGGCAGCATGGAGCCTCACTAAGCAGCTACCTACAGGGCATGAAGGAAGCCAGCAGCCTGGTCATCATGAAGCACTCAAGTCTTTTCCTGGACAGCTACACAGAGTACTGCACATCAGTTTCAAATTTCCTGGTTATGGGAGGATTCCAGCTTCTTGCTAAGCCTGCCATTGATTTCCTAAATAAAAACCAAGAACTCTTGCAAGATTTGTCAGAAGTGAATGATGAGAACACTCAGTTGATGGAAATCCTGAACATGCTGTTTTTCTTGCCAATCAGACGACTTCATAATTATGCAAAAGTTTTGCTAAAGCTTGCCACTTGCTTTGAAGTGCTTGGATACATAAGCAGAGTAACAGCAGGAAAAGATAGCTATCTAGCCTTGGTGGATAAGAACATCATGGGATACATCGCCAGTCTCCATGAGTTGGCTTCTACAGAAAGACGGTTTTACTCAAAACTGAGCGAAATCAAATCACAGATACTTAGGCCTCTTCTCAGTTTAGAAAATTTGGGCACAGTGACCACTGTCCAGCTGTTGCAGGAAGTTGCCAGCCGGTTCAGCAAGTTGTGTTACCTCATTGGGCAGCATGGAGCCTCACTAAGCAGCTACCTACAGGGCATGAAGGAAGCCAGCAGCCTGGTCATCATGAAGCACTCAAGTCTTTTCCTGGACAGCTACACAGAGTACTGCACATCAGTTTCAAATTTCCTGGTTATGGGAGGATTCCAGCTTCTTGCTAAGCCTGCCATTGATTTCCTAAATAAAAACCAAGAACTCTTGCAAGATTTGTCAGAAGTGAATGATGAGAACACTCAGTTGATGGAAATCCTGAACATGCTGTTTTTCTTGCCAATCAGACGACTTCATAATTATGCAAAAGTTTTGCTAAAGCTTGCCACTTGCTTTGAAGTG
Peptide sequence:
MGYIASLHELASTERRFYSKLSEIKSQILRPLLSLENLGTVTTVQLLQEVASRFSKLCYLIGQHGASLSSYLQGMKEASSLVIMKHSSLFLDSYTEYCTSVSNFLVMGGFQLLAKPAIDFLNKNQELLQDLSEVNDENTQLMEILNMLFFLPIRRLHNYAKVLLKLATCFEVLGYISRVTAGKDSYLALVDKNIMGYIASLHELASTERRFYSKLSEIKSQILRPLLSLENLGTVTTVQLLQEVASRFSKLCYLIGQHGASLSSYLQGMKEASSLVIMKHSSLFLDSYTEYCTSVSNFLVMGGFQLLAKPAIDFLNKNQELLQDLSEVNDENTQLMEILNMLFFLPIRRLHNYAKVLLKLATCFEV
IRESfinder result
IRESfinder score
0.668146679
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page