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mmu_circFarsb_351
Basic information of circular RNA
PanCircBase ID:
mmu_circFarsb_351
mm39_Chr. Position ID:
chr1|78438942|78439970|-
Gene name:
Farsb
Transcript:
ENSMUST00000170217.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
13,12,11
Exon/intron offsets:
0,529,966
Genomic length:
1028
Exon/intron sizes in nt:
81,208,62
Flanking exon/introns:
chr1:78435294-78438942|chr1:78439970-78443603
Splice length:
351
Other database IDs:
circBase: mmu_circ_0008975, CIRCpedia: MMU_CIRCpedia_38654
circAtlas: hsa-FARSB_0030, CIRCpedia: HSA_CIRCpedia_39807
Human Ortholog IDs:
Mature spliced Sequence:
GAGCTGCCTTACAGAAAGGAGATGGTGAGAGCTGATTTAATTAACAAGAAAGTTGGAATCAGAGAAACTCCTGCAAATCTCGCCAAGCTCCTGACCAGGATGTGTCTGAAGTCAGAAGTCATAGGTGACGGCAATCAGATTGAGGTTGAAATTCCTCCGACCAGAGCAGATGTCATCCATGCATGTGACATTGTGGAGGACGCAGCTATTGCTTATGGCTATAACAACATTCAGATGACTCTGCCGAAAACGTACACCATAGCTAATCAATTTCCTCTCAACAAGCTCACCGAGCTCCTCAGACTTGACATGGCTGCGGCTGGCTTCACCGAAGCACTGACTTTTGCTCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACCGAGCTCCTCAGACTTG
60.11
TGGCGAGATTTGCAGGAGTT
59.96
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACCGAGCTCCTCAGACTTG
60.11
TTGGCGAGATTTGCAGGAGT
59.96
150
PCR template sequence:
GTACACCATAGCTAATCAATTTCCTCTCAACAAGCTCACCGAGCTCCTCAGACTTGACATGGCTGCGGCTGGCTTCACCGAAGCACTGACTTTTGCTCTGGAGCTGCCTTACAGAAAGGAGATGGTGAGAGCTGATTTAATTAACAAGAAAGTTGGAATCAGAGAAACTCCTGCAAATCTCGCCAAGCTCCTGACCAGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-697(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GACTTTTGCTCTGGAGCTGCCTTACA
siRNA sets
TGTAAGGCAGCTCCAGAGC,TAAGGCAGCTCCAGAGCAA,GTAAGGCAGCTCCAGAGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFARSB_351_ORF_1
1.2811
0.281178112
0.960335126
681
ORF sequence:
ATGGTGAGAGCTGATTTAATTAACAAGAAAGTTGGAATCAGAGAAACTCCTGCAAATCTCGCCAAGCTCCTGACCAGGATGTGTCTGAAGTCAGAAGTCATAGGTGACGGCAATCAGATTGAGGTTGAAATTCCTCCGACCAGAGCAGATGTCATCCATGCATGTGACATTGTGGAGGACGCAGCTATTGCTTATGGCTATAACAACATTCAGATGACTCTGCCGAAAACGTACACCATAGCTAATCAATTTCCTCTCAACAAGCTCACCGAGCTCCTCAGACTTGACATGGCTGCGGCTGGCTTCACCGAAGCACTGACTTTTGCTCTGGAGCTGCCTTACAGAAAGGAGATGGTGAGAGCTGATTTAATTAACAAGAAAGTTGGAATCAGAGAAACTCCTGCAAATCTCGCCAAGCTCCTGACCAGGATGTGTCTGAAGTCAGAAGTCATAGGTGACGGCAATCAGATTGAGGTTGAAATTCCTCCGACCAGAGCAGATGTCATCCATGCATGTGACATTGTGGAGGACGCAGCTATTGCTTATGGCTATAACAACATTCAGATGACTCTGCCGAAAACGTACACCATAGCTAATCAATTTCCTCTCAACAAGCTCACCGAGCTCCTCAGACTTGACATGGCTGCGGCTGGCTTCACCGAAGCACTGACTTTTGCTCTG
Peptide sequence:
MVRADLINKKVGIRETPANLAKLLTRMCLKSEVIGDGNQIEVEIPPTRADVIHACDIVEDAAIAYGYNNIQMTLPKTYTIANQFPLNKLTELLRLDMAAAGFTEALTFALELPYRKEMVRADLINKKVGIRETPANLAKLLTRMCLKSEVIGDGNQIEVEIPPTRADVIHACDIVEDAAIAYGYNNIQMTLPKTYTIANQFPLNKLTELLRLDMAAAGFTEALTFAL
IRESfinder result
IRESfinder score
0.400115615
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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