top of page
mmu_circSos1_861
Basic information of circular RNA
PanCircBase ID:
mmu_circSos1_861
mm39_Chr. Position ID:
chr17|80752858|80762612|-
Gene name:
Sos1
Transcript:
ENSMUST00000068714.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
8,7,6,5,4,3
Exon/intron offsets:
0,172,3828,6551,8326,9622
Genomic length:
9754
Exon/intron sizes in nt:
99,11,11,44,21,01,65,100
Flanking exon/introns:
chr17:80742451-80752858|chr17:80762612-80767350
Splice length:
861
Other database IDs:
CIRCpedia: MMU_CIRCpedia_30497, circAtlas: mmu-Sos1_0002
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GAACGTGTTCAAAAGAGTTTTCCTCATCCAATTGATAAGTGGGCAATAGCTGATGCCCAATCAGCCATTGAAAAGAGGAAGAGACGAAATCCTTTATCGCTGCCAGCAGAAAGAATTCATCATTTATTAAGGGAGGTCCTCGGTTATAAAATTGACCACCAGGTTTCTGTTTACATAGTAGCAGTATTAGAATACATTTCTGCAGATATTTTAAAGCTCGTGGGGAATTATGTAAGAAATATACGGCATTATGAAATTACAAAACAAGACATTAAAGTGGCAATGTGTGCTGATAAGGTATTGATGGATATGTTTCATCAAGATGTAGAAGATATAAATATCTTATCTTTAACTGATGAAGAGCCTTCCACCTCAGGAGAACAAACTTATTATGATTTGGTAAAAGCATTCATGGCAGAAATTCGACAGTATATAAGAGAATTAAATCTAATTATAAAAGTTTTTCGAGAGCCCTTTGTCTCTAATTCCAAATTGTTTTCATCTAATGATGTAGAAAACATATTCAGTCGTATAGTAGATATACATGAACTTAGTGTAAAGTTACTGGGCCATATAGAAGATACTGTAGAAATGACAGATGAAGGCAGTCCCCACCCATTAGTAGGAAGCTGTTTTGAAGACTTAGCAGAAGAACTGGCATTTGACCCGTATGAGTCATATGCTCGGGATATTTTACGACCCGGATTCCATGGCCATTTTCTTAGTCAGTTATCAAAGCCTGGGGCAGCACTTTATTTGCAGTCCATAGGCGAAGGCTTCAAAGAAGCTGTCCAGTACGTCCTGCCCCGGCTGCTGCTTGCCCCTGTGTACCACTGTCTGCATTACTTTGAACTTCTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCTGTCCAGTACGTCCTG
59.4
TTTCAATGGCTGATTGGGCA
58.36
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCGAAGGCTTCAAAGAAGCT
59.12
GCATCAGCTATTGCCCACTT
58.6
148
PCR template sequence:
GTCCATAGGCGAAGGCTTCAAAGAAGCTGTCCAGTACGTCCTGCCCCGGCTGCTGCTTGCCCCTGTGTACCACTGTCTGCATTACTTTGAACTTCTGAAGGAACGTGTTCAAAAGAGTTTTCCTCATCCAATTGATAAGTGGGCAATAGCTGATGCCCAATCAGCCATTGAAAAGAGGAAGAGACGAAATCCTTTATCGC
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-93-5p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-106b-5p(1), mmu-miR-101b-3p(1), mmu-miR-494-3p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAACTTCTGAAGGAACGTGTTCAAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSOS1_861_ORF_1
0.8842
0.003660061
0.998850658
1440
ORF sequence:
ATGTGTGCTGATAAGGTATTGATGGATATGTTTCATCAAGATGTAGAAGATATAAATATCTTATCTTTAACTGATGAAGAGCCTTCCACCTCAGGAGAACAAACTTATTATGATTTGGTAAAAGCATTCATGGCAGAAATTCGACAGTATATAAGAGAATTAAATCTAATTATAAAAGTTTTTCGAGAGCCCTTTGTCTCTAATTCCAAATTGTTTTCATCTAATGATGTAGAAAACATATTCAGTCGTATAGTAGATATACATGAACTTAGTGTAAAGTTACTGGGCCATATAGAAGATACTGTAGAAATGACAGATGAAGGCAGTCCCCACCCATTAGTAGGAAGCTGTTTTGAAGACTTAGCAGAAGAACTGGCATTTGACCCGTATGAGTCATATGCTCGGGATATTTTACGACCCGGATTCCATGGCCATTTTCTTAGTCAGTTATCAAAGCCTGGGGCAGCACTTTATTTGCAGTCCATAGGCGAAGGCTTCAAAGAAGCTGTCCAGTACGTCCTGCCCCGGCTGCTGCTTGCCCCTGTGTACCACTGTCTGCATTACTTTGAACTTCTGAAGGAACGTGTTCAAAAGAGTTTTCCTCATCCAATTGATAAGTGGGCAATAGCTGATGCCCAATCAGCCATTGAAAAGAGGAAGAGACGAAATCCTTTATCGCTGCCAGCAGAAAGAATTCATCATTTATTAAGGGAGGTCCTCGGTTATAAAATTGACCACCAGGTTTCTGTTTACATAGTAGCAGTATTAGAATACATTTCTGCAGATATTTTAAAGCTCGTGGGGAATTATGTAAGAAATATACGGCATTATGAAATTACAAAACAAGACATTAAAGTGGCAATGTGTGCTGATAAGGTATTGATGGATATGTTTCATCAAGATGTAGAAGATATAAATATCTTATCTTTAACTGATGAAGAGCCTTCCACCTCAGGAGAACAAACTTATTATGATTTGGTAAAAGCATTCATGGCAGAAATTCGACAGTATATAAGAGAATTAAATCTAATTATAAAAGTTTTTCGAGAGCCCTTTGTCTCTAATTCCAAATTGTTTTCATCTAATGATGTAGAAAACATATTCAGTCGTATAGTAGATATACATGAACTTAGTGTAAAGTTACTGGGCCATATAGAAGATACTGTAGAAATGACAGATGAAGGCAGTCCCCACCCATTAGTAGGAAGCTGTTTTGAAGACTTAGCAGAAGAACTGGCATTTGACCCGTATGAGTCATATGCTCGGGATATTTTACGACCCGGATTCCATGGCCATTTTCTTAGTCAGTTATCAAAGCCTGGGGCAGCACTTTATTTGCAGTCCATAGGCGAAGGCTTCAAAGAAGCTGTCCAGTACGTCCTGCCCCGGCTGCTGCTTGCCCCTGTGTACCACTGTCTGCATTACTTTGAACTTCTGAAG
Peptide sequence:
MCADKVLMDMFHQDVEDINILSLTDEEPSTSGEQTYYDLVKAFMAEIRQYIRELNLIIKVFREPFVSNSKLFSSNDVENIFSRIVDIHELSVKLLGHIEDTVEMTDEGSPHPLVGSCFEDLAEELAFDPYESYARDILRPGFHGHFLSQLSKPGAALYLQSIGEGFKEAVQYVLPRLLLAPVYHCLHYFELLKERVQKSFPHPIDKWAIADAQSAIEKRKRRNPLSLPAERIHHLLREVLGYKIDHQVSVYIVAVLEYISADILKLVGNYVRNIRHYEITKQDIKVAMCADKVLMDMFHQDVEDINILSLTDEEPSTSGEQTYYDLVKAFMAEIRQYIRELNLIIKVFREPFVSNSKLFSSNDVENIFSRIVDIHELSVKLLGHIEDTVEMTDEGSPHPLVGSCFEDLAEELAFDPYESYARDILRPGFHGHFLSQLSKPGAALYLQSIGEGFKEAVQYVLPRLLLAPVYHCLHYFELLK
IRESfinder result
IRESfinder score
0.708786305
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page