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mmu_circSenp6_330
Basic information of circular RNA
PanCircBase ID:
mmu_circSenp6_330
mm39_Chr. Position ID:
chr9|79997130|80006188|+
Gene name:
Senp6
Transcript:
ENSMUST00000165607.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
3,4,5,6
Exon/intron offsets:
0,2418,3688,9037
Genomic length:
9058
Exon/intron sizes in nt:
58,146,105,21
Flanking exon/introns:
chr9:79994805-79997130|chr9:80006188-80010975
Splice length:
330
Other database IDs:
circAtlas: hsa-SENP6_0037
Human Ortholog IDs:
Mature spliced Sequence:
TGGGGCAAATCTACTCAGTGTAGAAGATGAGGATTCTGAAATCTCAAAAGGAAAAAAGTTAAATCGGAGATCTGAAATTGTTGCTACTAGTTCTGGTGATTTCATCTTGAAGACTTATGTAAGGCGGAGCAAGACTGACGGCTTTAAAACTTTGAAAGGCAACCCAATTGGACTTAACATGTTAAGCAACAATAAGAAACTGAGTGAAAGCACCGCAGGCACAGCATTATGTTCTGGAACTGTGGTTCATGGGAGGCGCTTCCATCATGCTCACTCACAGACGCCAGGCATCAGAACAGCGGCTCAGAGCAATCAGGACCGAAAAGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AACTGTGGTTCATGGGAGGC
60.25
AGCAACAATTTCAGATCTCCGA
58.06
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCATGCTCACTCACAGACGC
60.39
AGCAACAATTTCAGATCTCCGA
58.06
151
PCR template sequence:
GTTCTGGAACTGTGGTTCATGGGAGGCGCTTCCATCATGCTCACTCACAGACGCCAGGCATCAGAACAGCGGCTCAGAGCAATCAGGACCGAAAAGAAAGTGGGGCAAATCTACTCAGTGTAGAAGATGAGGATTCTGAAATCTCAAAAGGAAAAAAGTTAAATCGGAGATCTGAAATTGTTGCTACTAGTTCTGGTGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-322-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCGAAAAGAAAGTGGGGCAAATCTA
siRNA sets
TTGCCCCACTTTCTTTTCG,TTTGCCCCACTTTCTTTTC,TAGATTTGCCCCACTTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSENP6_330_ORF_1
0.935
0.090594067
0.577972723
480
ORF sequence:
ATGTTAAGCAACAATAAGAAACTGAGTGAAAGCACCGCAGGCACAGCATTATGTTCTGGAACTGTGGTTCATGGGAGGCGCTTCCATCATGCTCACTCACAGACGCCAGGCATCAGAACAGCGGCTCAGAGCAATCAGGACCGAAAAGAAAGTGGGGCAAATCTACTCAGTGTAGAAGATGAGGATTCTGAAATCTCAAAAGGAAAAAAGTTAAATCGGAGATCTGAAATTGTTGCTACTAGTTCTGGTGATTTCATCTTGAAGACTTATGTAAGGCGGAGCAAGACTGACGGCTTTAAAACTTTGAAAGGCAACCCAATTGGACTTAACATGTTAAGCAACAATAAGAAACTGAGTGAAAGCACCGCAGGCACAGCATTATGTTCTGGAACTGTGGTTCATGGGAGGCGCTTCCATCATGCTCACTCACAGACGCCAGGCATCAGAACAGCGGCTCAGAGCAATCAGGACCGAAAAGAA
Peptide sequence:
MLSNNKKLSESTAGTALCSGTVVHGRRFHHAHSQTPGIRTAAQSNQDRKESGANLLSVEDEDSEISKGKKLNRRSEIVATSSGDFILKTYVRRSKTDGFKTLKGNPIGLNMLSNNKKLSESTAGTALCSGTVVHGRRFHHAHSQTPGIRTAAQSNQDRKE
IRESfinder result
IRESfinder score
0.496956443
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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