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mmu_circTrpm7_657
Basic information of circular RNA
PanCircBase ID:
mmu_circTrpm7_657
mm39_Chr. Position ID:
chr2|126690416|126700412|-
Gene name:
Trpm7
Transcript:
ENSMUST00000103224.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,1402,2846,6146,9916
Genomic length:
9996
Exon/intron sizes in nt:
125,214,199,39,80
Flanking exon/introns:
chr2:126688165-126690416|chr2:126700412-126717893
Splice length:
657
Other database IDs:
circAtlas: mmu-Trpm7_0028
circBase: hsa_circ_0035251, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_14676
Human Ortholog IDs:
Mature spliced Sequence:
TCCCAGAAATCCTGGATAGAGAGCACTTTGACCAAGAGGGAGTGTGTATATATTATACCAAGCTCCAAAGACCCTCACAGATGTCTTCCAGGATGTCAGATTTGTCAGCAACTTGTCAGATGTTTCTGTGGTCGTTTGGTCAAGCAACATGCATGCTTTACTGCAAGTCTTGCCATGAAATACTCAGATGTGAAATTGGGTGAACACTTTAACCAGGCAATAGAAGAATGGTCTGTGGAAAAGCACACGGAGCAGAGCCCAACAGATGCTTATGGAGTCATCAATTTTCAAGGGGGTTCTCATTCCTACAGAGCTAAGTATGTGAGACTATCATATGATACCAAACCTGAAATCATTCTGCAACTTCTGCTTAAAGAATGGCAAATGGAGTTACCCAAACTTGTTATTTCTGTACATGGAGGCATGCAGAAGTTTGAACTTCATCCAAGAATCAAGCAGTTGCTTGGAAAGGGTCTTATTAAAGCTGCAGTTACAACCGGAGCTTGGATTTTAACTGGAGGAGTCAATACAGGTGTGGCAAAACATGTTGGTGATGCCCTCAAAGAACATGCTTCCAGATCATCTCGAAAAATTTGCACTATTGGAATAGCTCCATGGGGAGTGATAGAAAACAGAAATGATCTTGTTGGGAGAGAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACATGCTTCCAGATCATCTCGA
59.3
TGAGGGTCTTTGGAGCTTGG
59.6
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACATGCTTCCAGATCATCTCGA
59.3
GAGGGTCTTTGGAGCTTGGT
59.6
167
PCR template sequence:
CCTCAAAGAACATGCTTCCAGATCATCTCGAAAAATTTGCACTATTGGAATAGCTCCATGGGGAGTGATAGAAAACAGAAATGATCTTGTTGGGAGAGATTCCCAGAAATCCTGGATAGAGAGCACTTTGACCAAGAGGGAGTGTGTATATATTATACCAAGCTCCAAAGACCCTCACAGATGTCTTCCAGGATGTCAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-7b-5p(1), mmu-miR-31-5p(1), mmu-miR-106b-5p(1), mmu-miR-19a-3p(1), mmu-miR-136-5p(1), mmu-miR-218-5p(1), mmu-miR-499-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
TGTTGGGAGAGATTCCCAGAAATCCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRPM7_657_ORF_1
0.9607
-0.039104878
0.989843915
1140
ORF sequence:
ATGAAATACTCAGATGTGAAATTGGGTGAACACTTTAACCAGGCAATAGAAGAATGGTCTGTGGAAAAGCACACGGAGCAGAGCCCAACAGATGCTTATGGAGTCATCAATTTTCAAGGGGGTTCTCATTCCTACAGAGCTAAGTATGTGAGACTATCATATGATACCAAACCTGAAATCATTCTGCAACTTCTGCTTAAAGAATGGCAAATGGAGTTACCCAAACTTGTTATTTCTGTACATGGAGGCATGCAGAAGTTTGAACTTCATCCAAGAATCAAGCAGTTGCTTGGAAAGGGTCTTATTAAAGCTGCAGTTACAACCGGAGCTTGGATTTTAACTGGAGGAGTCAATACAGGTGTGGCAAAACATGTTGGTGATGCCCTCAAAGAACATGCTTCCAGATCATCTCGAAAAATTTGCACTATTGGAATAGCTCCATGGGGAGTGATAGAAAACAGAAATGATCTTGTTGGGAGAGATTCCCAGAAATCCTGGATAGAGAGCACTTTGACCAAGAGGGAGTGTGTATATATTATACCAAGCTCCAAAGACCCTCACAGATGTCTTCCAGGATGTCAGATTTGTCAGCAACTTGTCAGATGTTTCTGTGGTCGTTTGGTCAAGCAACATGCATGCTTTACTGCAAGTCTTGCCATGAAATACTCAGATGTGAAATTGGGTGAACACTTTAACCAGGCAATAGAAGAATGGTCTGTGGAAAAGCACACGGAGCAGAGCCCAACAGATGCTTATGGAGTCATCAATTTTCAAGGGGGTTCTCATTCCTACAGAGCTAAGTATGTGAGACTATCATATGATACCAAACCTGAAATCATTCTGCAACTTCTGCTTAAAGAATGGCAAATGGAGTTACCCAAACTTGTTATTTCTGTACATGGAGGCATGCAGAAGTTTGAACTTCATCCAAGAATCAAGCAGTTGCTTGGAAAGGGTCTTATTAAAGCTGCAGTTACAACCGGAGCTTGGATTTTAACTGGAGGAGTCAATACAGGTGTGGCAAAACATGTTGGTGATGCCCTCAAAGAACATGCTTCCAGATCATCTCGAAAAATTTGCACTATTGGAATAGCTCCATGGGGAGTGATAGAAAACAGAAATGATCTTGTTGGGAGAGAT
Peptide sequence:
MKYSDVKLGEHFNQAIEEWSVEKHTEQSPTDAYGVINFQGGSHSYRAKYVRLSYDTKPEIILQLLLKEWQMELPKLVISVHGGMQKFELHPRIKQLLGKGLIKAAVTTGAWILTGGVNTGVAKHVGDALKEHASRSSRKICTIGIAPWGVIENRNDLVGRDSQKSWIESTLTKRECVYIIPSSKDPHRCLPGCQICQQLVRCFCGRLVKQHACFTASLAMKYSDVKLGEHFNQAIEEWSVEKHTEQSPTDAYGVINFQGGSHSYRAKYVRLSYDTKPEIILQLLLKEWQMELPKLVISVHGGMQKFELHPRIKQLLGKGLIKAAVTTGAWILTGGVNTGVAKHVGDALKEHASRSSRKICTIGIAPWGVIENRNDLVGRD
IRESfinder result
IRESfinder score
0.616530424
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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