top of page
mmu_circYlpm1_312
Basic information of circular RNA
PanCircBase ID:
mmu_circYlpm1_312
mm39_Chr. Position ID:
chr12|85111744|85116573|+
Gene name:
Ylpm1
Transcript:
ENSMUST00000168977.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
18,19
Exon/intron offsets:
0,4648
Genomic length:
4829
Exon/intron sizes in nt:
1,31,181
Flanking exon/introns:
chr12:85107088-85111744|chr12:85116573-85116878
Splice length:
312
Other database IDs:
CIRCpedia: MMU_CIRCpedia_224335, circAtlas: mmu-Ylpm1_0010
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_156723
Human Ortholog IDs:
Mature spliced Sequence:
ACAAGTTGGATGGCTTGAGGACTGGTACTAAAAGGAAGCGAGACTGGGAGGCGATTGCCAGCAGAATGGAGGATTACCTTCAGCTCCCTGACGACTACGAGACTCGCGCTTCTGAGCCTGGGAAGAAGAGGGTGAGATGGGCAGACCTAGAAGAAAAGAAGGATGCAGATAGGAAAAGGGCCATAGGTTTTGTGGTCGGACAGACTGATTGGGAGAAGATCACAGATGAGAGTGGTCACCTGGCTGAAAGAGCCCTCAATCGGACCAAATATATATGAGACTTAGTTTTGAATGGAGTCATGTTCCTCTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGCCCTCAATCGGACCAAA
60.04
TCGTCAGGGAGCTGAAGGTA
59.96
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGTCACCTGGCTGAAAGA
59.89
TCGTCAGGGAGCTGAAGGTA
59.96
175
PCR template sequence:
GAGAAGATCACAGATGAGAGTGGTCACCTGGCTGAAAGAGCCCTCAATCGGACCAAATATATATGAGACTTAGTTTTGAATGGAGTCATGTTCCTCTAAGACAAGTTGGATGGCTTGAGGACTGGTACTAAAAGGAAGCGAGACTGGGAGGCGATTGCCAGCAGAATGGAGGATTACCTTCAGCTCCCTGACGACTACGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-196a-5p(1), mmu-miR-136-5p(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
ATGTTCCTCTAAGACAAGTTGGATGG
siRNA sets
AACTTGTCTTAGAGGAACA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.371776761
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page