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mmu_circPtprm_300
Basic information of circular RNA
PanCircBase ID:
mmu_circPtprm_300
mm39_Chr. Position ID:
chr17|67032734|67069211|-
Gene name:
Ptprm
Transcript:
ENSMUST00000037974.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
23,22,21,20
Exon/intron offsets:
0,18980,21361,36389
Genomic length:
36477
Exon/intron sizes in nt:
98,37,77,88
Flanking exon/introns:
chr17:67005477-67032734|chr17:67069211-67116460
Splice length:
300
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_368611
Human Ortholog IDs:
Mature spliced Sequence:
AGCTTCTTTGAAGGACAGTCTGCACCATGGGACTCTGCTAAGAAAGACGAGAACAGAATGAAGAACAGATACGGGAACATCATTGCATATGATCACTCTCGGGTACGGCTCCAGATGCTGGAAGGGGACAACAATTCAGACTACATCAATGGCAATTACATCGATGGCTATCATCGACCCAATCATTATATTGCAACCCAAGGACCCATGCAGGAGACTATCTATGACTTCTGGAGGATGGTGTGGCATGAGAACACGGCAAGCATCATCATGGTGACCAACCTTGTGGAAGTGGGAAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGACCCATGCAGGAGACTA
59.66
TTAGCAGAGTCCCATGGTGC
59.75
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGACCCATGCAGGAGACTA
59.66
TAGCAGAGTCCCATGGTGCA
60.91
140
PCR template sequence:
AGGACCCATGCAGGAGACTATCTATGACTTCTGGAGGATGGTGTGGCATGAGAACACGGCAAGCATCATCATGGTGACCAACCTTGTGGAAGTGGGAAGGAGCTTCTTTGAAGGACAGTCTGCACCATGGGACTCTGCTAAGAAAGACGAGAACAGAATGAAGAACAGATACGGGAACATCATTGCATATGATCACTCTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
GGAAGTGGGAAGGAGCTTCTTTGAAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPTPRM_300_ORF_1
1.0603
0.401886961
0.906889702
543
ORF sequence:
ATGAAGAACAGATACGGGAACATCATTGCATATGATCACTCTCGGGTACGGCTCCAGATGCTGGAAGGGGACAACAATTCAGACTACATCAATGGCAATTACATCGATGGCTATCATCGACCCAATCATTATATTGCAACCCAAGGACCCATGCAGGAGACTATCTATGACTTCTGGAGGATGGTGTGGCATGAGAACACGGCAAGCATCATCATGGTGACCAACCTTGTGGAAGTGGGAAGGAGCTTCTTTGAAGGACAGTCTGCACCATGGGACTCTGCTAAGAAAGACGAGAACAGAATGAAGAACAGATACGGGAACATCATTGCATATGATCACTCTCGGGTACGGCTCCAGATGCTGGAAGGGGACAACAATTCAGACTACATCAATGGCAATTACATCGATGGCTATCATCGACCCAATCATTATATTGCAACCCAAGGACCCATGCAGGAGACTATCTATGACTTCTGGAGGATGGTGTGGCATGAGAACACGGCAAGCATCATCATGGTGACCAACCTTGTGGAAGTGGGAAGG
Peptide sequence:
MKNRYGNIIAYDHSRVRLQMLEGDNNSDYINGNYIDGYHRPNHYIATQGPMQETIYDFWRMVWHENTASIIMVTNLVEVGRSFFEGQSAPWDSAKKDENRMKNRYGNIIAYDHSRVRLQMLEGDNNSDYINGNYIDGYHRPNHYIATQGPMQETIYDFWRMVWHENTASIIMVTNLVEVGR
IRESfinder result
IRESfinder score
0.298034611
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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