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mmu_circSav1_444
Basic information of circular RNA
PanCircBase ID:
mmu_circSav1_444
mm39_Chr. Position ID:
chr12|70030982|70031426|-
Gene name:
Sav1
Transcript:
ENSMUST00000021467.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
444
Exon/intron sizes in nt:
444
Flanking exon/introns:
chr12:70023012-70030982|chr12:70031426-70033447
Splice length:
444
Other database IDs:
circAtlas: mmu-Sav1_0001
circBase: hsa_circ_0031875, circAtlas: hsa-SAV1_0002, CIRCpedia: HSA_CIRCpedia_156653
Human Ortholog IDs:
Mature spliced Sequence:
ATCTCATGCCTTCATTCATTCGGCACGGTCCAACAATTCCCAGACGGACTGACCTCTGTCTTCCAGATTCAAGTGCTACTGCTTTCTCAGCTTCTGGAGATGGTGTAGTTTCAAGAAACCAGAGTTTCCTGAGAACTGCAATTCAAAGGACACCTCATGAAGTAATGAGAAGAGAAAGCCACAGACTGTCTGCCCCTTCTTACCTTGTCAGGAGCCTAGCAGATGTCCCTCGAGAGTGTGGCTCATCACAGTCATTTTTGACAGAAGTTAACTTTGCTGTTGAGAATGGAGACTCTGGCTCCCGATACTTCTTCTCAGATAACTTTTTTGATGGACAGAGAAGGCGGCCACTTGGAGATCGTGCACAAGAAGATTACAGATATTATGAATACAACCATGATCTCTTCCAGAGGATGCCACAGAGTCAGGGGAGGCACACTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCACTTGGAGATCGTGCACA
60.32
AGACAGAGGTCAGTCCGTCT
59.6
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCACTTGGAGATCGTGCACA
60.32
GACAGAGGTCAGTCCGTCTG
59.48
157
PCR template sequence:
CGGCCACTTGGAGATCGTGCACAAGAAGATTACAGATATTATGAATACAACCATGATCTCTTCCAGAGGATGCCACAGAGTCAGGGGAGGCACACTTCAGATCTCATGCCTTCATTCATTCGGCACGGTCCAACAATTCCCAGACGGACTGACCTCTGTCTTCCAGATTCAAGTGCTACTGCTTTCTCAGCTTCTGGAGA
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-135a-5p(1), mmu-miR-7a-5p(1), mmu-miR-149-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGCACACTTCAGATCTCATGCCTTC
siRNA sets
TGAGATCTGAAGTGTGCCT, ATGAGATCTGAAGTGTGCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSAV1_444_ORF_1
0.8383
0.030218629
0.941772871
882
ORF sequence:
ATGCCTTCATTCATTCGGCACGGTCCAACAATTCCCAGACGGACTGACCTCTGTCTTCCAGATTCAAGTGCTACTGCTTTCTCAGCTTCTGGAGATGGTGTAGTTTCAAGAAACCAGAGTTTCCTGAGAACTGCAATTCAAAGGACACCTCATGAAGTAATGAGAAGAGAAAGCCACAGACTGTCTGCCCCTTCTTACCTTGTCAGGAGCCTAGCAGATGTCCCTCGAGAGTGTGGCTCATCACAGTCATTTTTGACAGAAGTTAACTTTGCTGTTGAGAATGGAGACTCTGGCTCCCGATACTTCTTCTCAGATAACTTTTTTGATGGACAGAGAAGGCGGCCACTTGGAGATCGTGCACAAGAAGATTACAGATATTATGAATACAACCATGATCTCTTCCAGAGGATGCCACAGAGTCAGGGGAGGCACACTTCAGATCTCATGCCTTCATTCATTCGGCACGGTCCAACAATTCCCAGACGGACTGACCTCTGTCTTCCAGATTCAAGTGCTACTGCTTTCTCAGCTTCTGGAGATGGTGTAGTTTCAAGAAACCAGAGTTTCCTGAGAACTGCAATTCAAAGGACACCTCATGAAGTAATGAGAAGAGAAAGCCACAGACTGTCTGCCCCTTCTTACCTTGTCAGGAGCCTAGCAGATGTCCCTCGAGAGTGTGGCTCATCACAGTCATTTTTGACAGAAGTTAACTTTGCTGTTGAGAATGGAGACTCTGGCTCCCGATACTTCTTCTCAGATAACTTTTTTGATGGACAGAGAAGGCGGCCACTTGGAGATCGTGCACAAGAAGATTACAGATATTATGAATACAACCATGATCTCTTCCAGAGGATGCCACAGAGTCAGGGGAGGCACACTTCA
Peptide sequence:
MPSFIRHGPTIPRRTDLCLPDSSATAFSASGDGVVSRNQSFLRTAIQRTPHEVMRRESHRLSAPSYLVRSLADVPRECGSSQSFLTEVNFAVENGDSGSRYFFSDNFFDGQRRRPLGDRAQEDYRYYEYNHDLFQRMPQSQGRHTSDLMPSFIRHGPTIPRRTDLCLPDSSATAFSASGDGVVSRNQSFLRTAIQRTPHEVMRRESHRLSAPSYLVRSLADVPRECGSSQSFLTEVNFAVENGDSGSRYFFSDNFFDGQRRRPLGDRAQEDYRYYEYNHDLFQRMPQSQGRHTS
IRESfinder result
IRESfinder score
0.683530606
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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