top of page
mmu_circMtrex_490_1
Basic information of circular RNA
PanCircBase ID:
mmu_circMtrex_490_1
mm39_Chr. Position ID:
chr13|113009432|113017676|-
Gene name:
Mtrex
Transcript:
ENSMUST00000022281.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
25,24,23,22
Exon/intron offsets:
0,1697,3537,8080
Genomic length:
8244
Exon/intron sizes in nt:
16,35,71,06,164
Flanking exon/introns:
chr13:113005649-113009432|chr13:113017676-113019633
Splice length:
490
Other database IDs:
circAtlas: mmu-Skiv2l2_0005
circBase: hsa_circ_0129167, circAtlas: hsa-SKIV2L2_0029, CIRCpedia: HSA_CIRCpedia_169369
Human Ortholog IDs:
Mature spliced Sequence:
ATTGCACTAGATATCAAGTCTGCAAAGAGAGAACTGAAGAAGGCAAGAACTGTTCTGCAAATGGACGAGCTCAAATGCCGCAAGCGCGTGCTGAGACGGCTGGGCTTTGCGACATCGTCGGATGTCATAGAGATGAAAGGACGGGTGGCTTGTGAAATAAGCAGTGCGGACGAGCTCCTTCTAACGGAGATGATGTTCAATGGGCTTTTCAATGACCTTTCTTCAGAGCAGGCAACCGCACTGTTAAGCTGTTTTGTGTTTCAAGAGAATTCTAGTGAGATGCCCAAACTAACAGAGCAGTTAGCTGGACCACTCCGACAAATGCAGGAATGTGCTAAAAGGATTGCAAAAGTTTCAGCAGAGGCAAAGCTGGAGATTGATGAAGAAACTTACCTAAGCTCATTCAAGCCTCACCTGATGGATGTGGTGTATACCTGGGCAACTGGGGCCACATTTGCCCATATCTGCAAAATGACAGATGTTTTCGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTCACCTGATGGATGTGG
60.47
TGAGCTCGTCCATTTGCAGA
59.68
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCTCACCTGATGGATGTG
59.45
TGAGCTCGTCCATTTGCAGA
59.68
157
PCR template sequence:
TACCTAAGCTCATTCAAGCCTCACCTGATGGATGTGGTGTATACCTGGGCAACTGGGGCCACATTTGCCCATATCTGCAAAATGACAGATGTTTTCGAAGATTGCACTAGATATCAAGTCTGCAAAGAGAGAACTGAAGAAGGCAAGAACTGTTCTGCAAATGGACGAGCTCAAATGCCGCAAGCGCGTGCTGAGACGGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
GATGTTTTCGAAGATTGCACTAGATA
siRNA sets
TATCTAGTGCAATCTTCGA, ATCTAGTGCAATCTTCGAA, TAGTGCAATCTTCGAAAAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMTREX_490_1_ORF_1
0.7373
0.196678713
0.755977941
585
ORF sequence:
ATGGACGAGCTCAAATGCCGCAAGCGCGTGCTGAGACGGCTGGGCTTTGCGACATCGTCGGATGTCATAGAGATGAAAGGACGGGTGGCTTGTGAAATAAGCAGTGCGGACGAGCTCCTTCTAACGGAGATGATGTTCAATGGGCTTTTCAATGACCTTTCTTCAGAGCAGGCAACCGCACTGTTAAGCTGTTTTGTGTTTCAAGAGAATTCTAGTGAGATGCCCAAACTAACAGAGCAGTTAGCTGGACCACTCCGACAAATGCAGGAATGTGCTAAAAGGATTGCAAAAGTTTCAGCAGAGGCAAAGCTGGAGATTGATGAAGAAACTTACCTAAGCTCATTCAAGCCTCACCTGATGGATGTGGTGTATACCTGGGCAACTGGGGCCACATTTGCCCATATCTGCAAAATGACAGATGTTTTCGAAGATTGCACTAGATATCAAGTCTGCAAAGAGAGAACTGAAGAAGGCAAGAACTGTTCTGCAAATGGACGAGCTCAAATGCCGCAAGCGCGTGCTGAGACGGCTGGGCTTTGCGACATCGTCGGATGTCATAGAGATGAAAGGACGGGTGGCTTGTGA
Peptide sequence:
MDELKCRKRVLRRLGFATSSDVIEMKGRVACEISSADELLLTEMMFNGLFNDLSSEQATALLSCFVFQENSSEMPKLTEQLAGPLRQMQECAKRIAKVSAEAKLEIDEETYLSSFKPHLMDVVYTWATGATFAHICKMTDVFEDCTRYQVCKERTEEGKNCSANGRAQMPQARAETAGLCDIVGCHRDERTGGL
IRESfinder result
IRESfinder score
0.216210416
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page