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mmu_circSpg7_800
Basic information of circular RNA
PanCircBase ID:
mmu_circSpg7_800
mm39_Chr. Position ID:
chr8|123793211|123806278|+
Gene name:
Spg7
Transcript:
ENSMUST00000125975.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,3907,7276,10378,11345,12941
Genomic length:
13067
Exon/intron sizes in nt:
10,38,62,42,14,01,03,100
Flanking exon/introns:
chr8:123789773-123793211|chr8:123806278-123806707
Splice length:
800
Other database IDs:
CIRCpedia: MMU_CIRCpedia_5964, circAtlas: mmu-Spg7_0009
circBase: hsa_circ_0040933
Human Ortholog IDs:
Mature spliced Sequence:
AGTTTGCTATTGCGAATACTGACCCCTAGCTTTGAAGGTATTAGCGGATTGTTACTGAAACAGCATATAGTTCCAAATGCAGTCAGACTGTGGCCGCTTTCAGCACTTTGTATTTTAACACCTCAAGGATGAAGCAGAAGAATAAAGACAATGATAAACCCAAAGGCAAGACCCCTGAAGATGATGAAGAAGAGAAGAGACGAAAAGAGCGGGAAGACCAGATGTACCGAGAGAGGCTGCGCACCCTGTTCATCATTGCTCTTGTCATGAGCCTGCTGAACTCCCTCAGTACAAGTGGGGGCAGTATTTCCTGGGCTGACTTTGTCAACGAGATGCTGGCTAAAGGCGAGGTGCAGCGTGTGCAGGTGGTGCCCGAGAGTGATGTGGTGGAAGTCTATCTGCATCCTGGAGCTGTGGTGTTTGGGCGGCCTCGGCTGGCCCTGATGTATCGGATGCAGGTTGCAAACATCGACAAATTTGAAGAGAAGCTTCGAGCAGCCGAAGATGAACTGAACATTGAGAGCAAGGACAGGATTCCCGTGTCCTACAAGCGGACAGGATTCTTTGGGAATGCCCTCTACGCCCTGGGGATGACAGCCGTGGGCTTGGCCATCCTGTGGTATGTTTTCAGACTGGCGGGGATGACCGGAAGGGAAGGCGGATTCAGTGCTTTTAATCAGCTTAAGATGGCACGTTTCACCATTGTGGACGGGAAGACAGGGAAAGGAGTCAGCTTCCAAGATGTGGCAGGAATGCATGAAGCCAAGCTGGAAGTCCGAGAATTTGTGGATTATCTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCATGAAGCCAAGCTGGAAG
59.83
AAAGCGGCCACAGTCTGAC
60.6
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGCAGGAATGCATGAAGC
60.18
AAAGCGGCCACAGTCTGAC
60.6
157
PCR template sequence:
CATTGTGGACGGGAAGACAGGGAAAGGAGTCAGCTTCCAAGATGTGGCAGGAATGCATGAAGCCAAGCTGGAAGTCCGAGAATTTGTGGATTATCTGAAGAGTTTGCTATTGCGAATACTGACCCCTAGCTTTGAAGGTATTAGCGGATTGTTACTGAAACAGCATATAGTTCCAAATGCAGTCAGACTGTGGCCGCTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
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-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-106b-5p(1), mmu-miR-335-5p(1), mmu-miR-217-5p(1), mmu-miR-339-5p(1), mmu-miR-214-3p(1), mmu-miR-494-3p(1), mmu-miR-130b-3p(1), mmu-miR-802-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GGATTATCTGAAGAGTTTGCTATTGC
siRNA sets
AATAGCAAACTCTTCAGAT, CAATAGCAAACTCTTCAGA, ATAGCAAACTCTTCAGATA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSPG7_800_ORF_1
0.9972
0.346666851
0.977973074
804
ORF sequence:
ATGAAGCAGAAGAATAAAGACAATGATAAACCCAAAGGCAAGACCCCTGAAGATGATGAAGAAGAGAAGAGACGAAAAGAGCGGGAAGACCAGATGTACCGAGAGAGGCTGCGCACCCTGTTCATCATTGCTCTTGTCATGAGCCTGCTGAACTCCCTCAGTACAAGTGGGGGCAGTATTTCCTGGGCTGACTTTGTCAACGAGATGCTGGCTAAAGGCGAGGTGCAGCGTGTGCAGGTGGTGCCCGAGAGTGATGTGGTGGAAGTCTATCTGCATCCTGGAGCTGTGGTGTTTGGGCGGCCTCGGCTGGCCCTGATGTATCGGATGCAGGTTGCAAACATCGACAAATTTGAAGAGAAGCTTCGAGCAGCCGAAGATGAACTGAACATTGAGAGCAAGGACAGGATTCCCGTGTCCTACAAGCGGACAGGATTCTTTGGGAATGCCCTCTACGCCCTGGGGATGACAGCCGTGGGCTTGGCCATCCTGTGGTATGTTTTCAGACTGGCGGGGATGACCGGAAGGGAAGGCGGATTCAGTGCTTTTAATCAGCTTAAGATGGCACGTTTCACCATTGTGGACGGGAAGACAGGGAAAGGAGTCAGCTTCCAAGATGTGGCAGGAATGCATGAAGCCAAGCTGGAAGTCCGAGAATTTGTGGATTATCTGAAGAGTTTGCTATTGCGAATACTGACCCCTAGCTTTGAAGGTATTAGCGGATTGTTACTGAAACAGCATATAGTTCCAAATGCAGTCAGACTGTGGCCGCTTTCAGCACTTTGTATTTTAACACCTCAAGGATGA
Peptide sequence:
MKQKNKDNDKPKGKTPEDDEEEKRRKEREDQMYRERLRTLFIIALVMSLLNSLSTSGGSISWADFVNEMLAKGEVQRVQVVPESDVVEVYLHPGAVVFGRPRLALMYRMQVANIDKFEEKLRAAEDELNIESKDRIPVSYKRTGFFGNALYALGMTAVGLAILWYVFRLAGMTGREGGFSAFNQLKMARFTIVDGKTGKGVSFQDVAGMHEAKLEVREFVDYLKSLLLRILTPSFEGISGLLLKQHIVPNAVRLWPLSALCILTPQG
IRESfinder result
IRESfinder score
0.407577539
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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