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mmu_circSrrm1_277
Basic information of circular RNA
PanCircBase ID:
mmu_circSrrm1_277
mm39_Chr. Position ID:
chr4|135054402|135056828|-
Gene name:
Srrm1
Transcript:
ENSMUST00000105861.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
13,12
Exon/intron offsets:
0,2281
Genomic length:
2426
Exon/intron sizes in nt:
132,145
Flanking exon/introns:
chr4:135052591-135054402|chr4:135056828-135059031
Splice length:
277
Other database IDs:
circBase: mmu_circ_0011300, CIRCpedia: MMU_CIRCpedia_8262, circAtlas: mmu-Srrm1_0004
Human Ortholog IDs:
Mature spliced Sequence:
ACTCTGGCTCCTCTTCCACCTCAGAAGATGAGCGGCCCAAGAGATCCCATGTAAAGAACGGTGAGGTAGGCAGGCGGCGGAGACATTCCCCTTCTCGGAGTGCCTCTCCATCACCTCGAAAGCGCCAGAAAGAGACTTCCCCTCGTAGTAGAAGGAGGAGAAGTCCCTCTCCCCCTCCTGCCAGAAGGCGAAGGTCTCCTTCTCCAGCCCCTCCGCCGCCACCTCCCCCTCCTCCTCCTCGGCGGCGCAGATCTCCCACCCCACCACCACGACGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCCTTCTCCAGCCCCTC
60
CGAGAAGGGGAATGTCTCCG
59.9
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGTCTCCTTCTCCAGCCC
60.91
CTGCCTACCTCACCGTTCTT
59.39
160
PCR template sequence:
CTGCCAGAAGGCGAAGGTCTCCTTCTCCAGCCCCTCCGCCGCCACCTCCCCCTCCTCCTCCTCGGCGGCGCAGATCTCCCACCCCACCACCACGACGAAGACTCTGGCTCCTCTTCCACCTCAGAAGATGAGCGGCCCAAGAGATCCCATGTAAAGAACGGTGAGGTAGGCAGGCGGCGGAGACATTCCCCTTCTCGGAG
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-207(1)
siRNAs for circular RNA silencing
Junction sequence
CACCACGACGAAGACTCTGGCTCCTC
siRNA sets
GAGCCAGAGTCTTCGTCGT, CAGAGTCTTCGTCGTGGTG
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
0.23074144
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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