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mmu_circGot1_802
Basic information of circular RNA
PanCircBase ID:
mmu_circGot1_802
mm39_Chr. Position ID:
chr19|43491346|43496432|-
Gene name:
Got1
Transcript:
ENSMUST00000026196.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
8,7,6,5,4,3
Exon/intron offsets:
0,1614,1868,4014,4414,4962
Genomic length:
5086
Exon/intron sizes in nt:
1,43,16,61,51,10,51,13,000
Flanking exon/introns:
chr19:43488996-43491346|chr19:43496432-43504119
Splice length:
802
Other database IDs:
CIRCpedia: MMU_CIRCpedia_227946, circAtlas: mmu-Got1_0001
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_76782
Human Ortholog IDs:
Mature spliced Sequence:
GTTGGAGGGGTGCAGTCTTTGGGAGGGACAGGCGCTCTTCGGATTGGAGCTGACTTCTTAGGGCGATGGTACAATGGTACAGATAACAAGAACACACCAATCTACGTATCATCACCAACCTGGGAGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAGAATGCCCCCGAGTTCTCCATCTTTGTCCTCCATGCCTGTGCGCACAACCCAACAGGGACCGACCCGACTCCAGAGCAGTGGAAGCAGATCGCTGCTGTCATGCAGCGCCGTTTTCTGTTCCCCTTCTTTGACTCAGCCTATCAGGGCTTTGCATCTGGAGACCTAGAGAAAGATGCGTGGGCTATTCGCTATTTTGTGTCTGAAGGCTTCGAGCTCTTCTGTGCCCAGTCCTTCTCCAAGAACTTCGGGCTCTACAATGAGAGAGTGGGGAATCTGACCGTGGTCGGAAAAGAGTCTGACAGCGTCCTGCGGGTCCTTTCCCAGATGGAGAAGATTGTACGAATCACCTGGTCCAATCCCCCAGCCCAAGGAGCTCGGATTGTGGCCGCCACCCTCTCTGACCCGGAGCTCTTTAAGGAGTGGAAAGGTAACGTGAAGACAATGGCTGACCGGATTCTGACCATGAGATCCGAACTCAGGGCAAGACTAGAAGCTCTCAAGACCCCCGGGACTTGGTCTCACATCACTGAGCAGATTGGAATGTTCAGTTTCACCGGCTTGAACC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCCGAACTCAGGGCAAGAC
59.75
CGCCCTAAGAAGTCAGCTCC
60.18
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATCCGAACTCAGGGCAAGA
59.46
CGCCCTAAGAAGTCAGCTCC
60.18
164
PCR template sequence:
AGATCCGAACTCAGGGCAAGACTAGAAGCTCTCAAGACCCCCGGGACTTGGTCTCACATCACTGAGCAGATTGGAATGTTCAGTTTCACCGGCTTGAACCGTTGGAGGGGTGCAGTCTTTGGGAGGGACAGGCGCTCTTCGGATTGGAGCTGACTTCTTAGGGCGATGGTACAATGGTACAGATAACAAGAACACACCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-150-5p(1), mmu-miR-324-5p(1), mmu-miR-125b-5p(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCGGCTTGAACCGTTGGAGGGGTGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGOT1_802_ORF_1
0.9716
0.279085047
0.804167958
519
ORF sequence:
ATGCAGCGCCGTTTTCTGTTCCCCTTCTTTGACTCAGCCTATCAGGGCTTTGCATCTGGAGACCTAGAGAAAGATGCGTGGGCTATTCGCTATTTTGTGTCTGAAGGCTTCGAGCTCTTCTGTGCCCAGTCCTTCTCCAAGAACTTCGGGCTCTACAATGAGAGAGTGGGGAATCTGACCGTGGTCGGAAAAGAGTCTGACAGCGTCCTGCGGGTCCTTTCCCAGATGGAGAAGATTGTACGAATCACCTGGTCCAATCCCCCAGCCCAAGGAGCTCGGATTGTGGCCGCCACCCTCTCTGACCCGGAGCTCTTTAAGGAGTGGAAAGGTAACGTGAAGACAATGGCTGACCGGATTCTGACCATGAGATCCGAACTCAGGGCAAGACTAGAAGCTCTCAAGACCCCCGGGACTTGGTCTCACATCACTGAGCAGATTGGAATGTTCAGTTTCACCGGCTTGAACCGTTGGAGGGGTGCAGTCTTTGGGAGGGACAGGCGCTCTTCGGATTGGAGCTGA
Peptide sequence:
MQRRFLFPFFDSAYQGFASGDLEKDAWAIRYFVSEGFELFCAQSFSKNFGLYNERVGNLTVVGKESDSVLRVLSQMEKIVRITWSNPPAQGARIVAATLSDPELFKEWKGNVKTMADRILTMRSELRARLEALKTPGTWSHITEQIGMFSFTGLNRWRGAVFGRDRRSSDWS
IRESfinder result
IRESfinder score
0.505780383
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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