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mmu_circCsgalnact1_778
Basic information of circular RNA
PanCircBase ID:
mmu_circCsgalnact1_778
mm39_Chr. Position ID:
chr8|69098450|69172146|-
Gene name:
Csgalnact1
Transcript:
ENSMUST00000136060.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,73055
Genomic length:
73696
Exon/intron sizes in nt:
1,37,641
Flanking exon/introns:
chr8:69009772-69098450|chr8:69172146-69187677
Splice length:
778
Other database IDs:
circBase: mmu_circ_0014913, CIRCpedia: MMU_CIRCpedia_27025, circAtlas: mmu-Csgalct1_0004
Human Ortholog IDs:
Mature spliced Sequence:
GTTCCAGGAACAAACCATTTGGTTCCCTCACCCTTCTCACGGCGTGTGTAAGTCTCAGAGGAAGCTGCTAAAGTCCCAGACGCAGTAGGAAAGGAAGAATAGAGGAAGGTGTGCCTCTTCCCTTTCAAGGATGCCTTCAGGATATCTCATCCAACCTTTAGCTTATACCCCACTCACCAGAGTTCAGCCACCTGGTCACATTTAGCTCCAAGACTGTGGAGGAAATGTAACCTGAAGCCTGAATAGTGATGAGCCCAAGCTGATTATTGTGATTCTTGTCTAAAGTACCAAAGGCACTCCATGACCTCTGTCACTCCATTTTTATGACATCTGTCAGGAGCTATTGCATCATACCTGGAGGGACCAGTGCAGCAGCTATGGACCAGAGAAGGAAGTAGGCGGAAAAGGAGGACACCATAGCCTGCCTGTGTAGACCTGGGAGGGTGAGGAGCTGAGGCCGAAGCTCCTTCTGTCTTGGTCTTCTTGGAAGGTCGGTCTACACATTCAACTCTCTTCTTGCTGCATTTCGTGACACCACAGCCTTGGGGACTTTCAATTGCCTCCCAGTGGCTAGAGAACATTTGCAGCTTTCAAAACCGCTCCTTGCTTATCGAGCAGAACACCCGGTGGCAACAGAGAAGGTTCCTTGAACATGCATGACAGATTGGAGAGTTGCCATGTGGATCTACAGTCCTCAGTGTGAGAAGCTTTAAACAATCATTTCTGTGGCTGGAATCTTCAAATGATCTACTTTTTATTGCCTCTGGAGCATAACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGATCTACAGTCCTCAGTG
58.91
CGTGAGAAGGGTGAGGGAAC
60.04
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGATCTACAGTCCTCAGTGT
58.91
CGTGAGAAGGGTGAGGGAAC
60.04
140
PCR template sequence:
TGTGGATCTACAGTCCTCAGTGTGAGAAGCTTTAAACAATCATTTCTGTGGCTGGAATCTTCAAATGATCTACTTTTTATTGCCTCTGGAGCATAACCAGGTTCCAGGAACAAACCATTTGGTTCCCTCACCCTTCTCACGGCGTGTGTAAGTCTCAGAGGAAGCTGCTAAAGTCCCAGACGCAGTAGGAAAGGAAGAAT
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-9-5p(1), mmu-miR-362-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GGAGCATAACCAGGTTCCAGGAACAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCSGALNACT1_778_ORF_1
0.8792
-0.143377049
0.02652299
87
ORF sequence:
ATGATCTACTTTTTATTGCCTCTGGAGCATAACCAGGTTCCAGGAACAAACCATTTGGTTCCCTCACCCTTCTCACGGCGTGTGTAA
Peptide sequence:
MIYFLLPLEHNQVPGTNHLVPSPFSRRV
IRESfinder result
IRESfinder score
0.70032822
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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