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mmu_circGalntl5_1000
Basic information of circular RNA
PanCircBase ID:
mmu_circGalntl5_1000
mm39_Chr. Position ID:
chr5|25391071|25415439|+
Gene name:
Galntl5
Transcript:
ENSMUST00000030778.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,3756,9212,12338,17059,24250
Genomic length:
24368
Exon/intron sizes in nt:
2,24,11,81,67,12,32,50,000
Flanking exon/introns:
chr5:25386642-25391071|chr5:25415439-25422499
Splice length:
1000
Other database IDs:
circAtlas: mmu-Galntl5_0002
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GAAATTAGAACTTAAAAATGTGAAACCCACAATGAAAAGTGTCATAATTCAGGGTTTATTCTGTGGATTCCTGGCCATCGGGCTCTGGGCATCTATGTTACTTTTGTTTTTGCACCTTGAACAAGAAGACATGCTGGAGAATGAAAAGGAGGAACTCCTAAAGAAGAGGTCACTCGGAAAAAATGCGCACCAGCAAACCCGTCACTCAGAGGACGTCACTCATGATGAGGTTAACTTTTCAGATCCAGAACTTATCCAAGGATTGAGGCGATATGGATTAAATGCCATCATGAGTAGAAGACTGGGCATCGAGAGAGAGGTGCCAGATTCCAGGGATAAAATATGTCAGCAGAAACACTACCCATTCAATCTACCCACTGCCAGCATCATCATATGCTTCTATAATGAAGAATTTAACACCTTGCTCCGGGCAGTGTCGAGTGTGGTGAACCTCAGTCCGCAGCATCTCCTGGAGGAGATCATTCTGGTGGATGACATGAGTGAATTTGATGATTTGAAGGACAAACTGGACTATTATCTGGAAATTTTTCGTGGAAAAGTTAAATTAATAAGAAACAAAAAGAGAGAGGGTCTTATCAGATCAAAGATGATTGGCGCCTCCCGGGCTTCAGGGGACATCCTGGTGTTCTTGGATAGTCACTGTGAGGTGAATAGAGTCTGGCTAGAACCCTTGCTGCATGCCATTGCTAAGGATCACAAAATGGTGGTATGCCCTATTATCGATGTCATCAATGAATTAACCTTGGATTATATGGCGGCACCTATTGTAAGGGGAGCTTTTGACTGGAATCTGAATCTCAGATGGGACAATGTTTTCGCATATGAGTTGGACGGCCCAGAAGGACCAAGTACACCTATCCGGTCACCTGCAATGACAGGAGGAATTTTTGCTATAAACAGACATTATTTTAATGAACTTGGACAATATGACAACGGCATGGATATTTGTGGAGGAGAAAATGTGGAACTTTCGCTAAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGCATGGATATTTGTGGAGG
59.12
AACATAGATGCCCAGAGCCC
59.52
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGGCATGGATATTTGTGGAGG
59.12
ATAGATGCCCAGAGCCCGAT
60.55
142
PCR template sequence:
AGGAATTTTTGCTATAAACAGACATTATTTTAATGAACTTGGACAATATGACAACGGCATGGATATTTGTGGAGGAGAAAATGTGGAACTTTCGCTAAGAGAAATTAGAACTTAAAAATGTGAAACCCACAATGAAAAGTGTCATAATTCAGGGTTTATTCTGTGGATTCCTGGCCATCGGGCTCTGGGCATCTATGTTA
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-362-5p(2), mmu-miR-335-3p(2), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-433-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTTTCGCTAAGAGAAATTAGAACTT
siRNA sets
TTCTAATTTCTCTTAGCGA, GTTCTAATTTCTCTTAGCG, AGTTCTAATTTCTCTTAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGALNTL5_1000_ORF_1
1.012
0.13927506
0.986107427
984
ORF sequence:
ATGAAAAGTGTCATAATTCAGGGTTTATTCTGTGGATTCCTGGCCATCGGGCTCTGGGCATCTATGTTACTTTTGTTTTTGCACCTTGAACAAGAAGACATGCTGGAGAATGAAAAGGAGGAACTCCTAAAGAAGAGGTCACTCGGAAAAAATGCGCACCAGCAAACCCGTCACTCAGAGGACGTCACTCATGATGAGGTTAACTTTTCAGATCCAGAACTTATCCAAGGATTGAGGCGATATGGATTAAATGCCATCATGAGTAGAAGACTGGGCATCGAGAGAGAGGTGCCAGATTCCAGGGATAAAATATGTCAGCAGAAACACTACCCATTCAATCTACCCACTGCCAGCATCATCATATGCTTCTATAATGAAGAATTTAACACCTTGCTCCGGGCAGTGTCGAGTGTGGTGAACCTCAGTCCGCAGCATCTCCTGGAGGAGATCATTCTGGTGGATGACATGAGTGAATTTGATGATTTGAAGGACAAACTGGACTATTATCTGGAAATTTTTCGTGGAAAAGTTAAATTAATAAGAAACAAAAAGAGAGAGGGTCTTATCAGATCAAAGATGATTGGCGCCTCCCGGGCTTCAGGGGACATCCTGGTGTTCTTGGATAGTCACTGTGAGGTGAATAGAGTCTGGCTAGAACCCTTGCTGCATGCCATTGCTAAGGATCACAAAATGGTGGTATGCCCTATTATCGATGTCATCAATGAATTAACCTTGGATTATATGGCGGCACCTATTGTAAGGGGAGCTTTTGACTGGAATCTGAATCTCAGATGGGACAATGTTTTCGCATATGAGTTGGACGGCCCAGAAGGACCAAGTACACCTATCCGGTCACCTGCAATGACAGGAGGAATTTTTGCTATAAACAGACATTATTTTAATGAACTTGGACAATATGACAACGGCATGGATATTTGTGGAGGAGAAAATGTGGAACTTTCGCTAAGAGAAATTAGAACTTAA
Peptide sequence:
MKSVIIQGLFCGFLAIGLWASMLLLFLHLEQEDMLENEKEELLKKRSLGKNAHQQTRHSEDVTHDEVNFSDPELIQGLRRYGLNAIMSRRLGIEREVPDSRDKICQQKHYPFNLPTASIIICFYNEEFNTLLRAVSSVVNLSPQHLLEEIILVDDMSEFDDLKDKLDYYLEIFRGKVKLIRNKKREGLIRSKMIGASRASGDILVFLDSHCEVNRVWLEPLLHAIAKDHKMVVCPIIDVINELTLDYMAAPIVRGAFDWNLNLRWDNVFAYELDGPEGPSTPIRSPAMTGGIFAINRHYFNELGQYDNGMDICGGENVELSLREIRT
IRESfinder result
IRESfinder score
0.529908329
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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