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mmu_circItga6_376
Basic information of circular RNA
PanCircBase ID:
mmu_circItga6_376
mm39_Chr. Position ID:
chr2|71671987|71676225|+
Gene name:
Itga6
Transcript:
ENSMUST00000112101.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
20,21,22
Exon/intron offsets:
0,1485,4139
Genomic length:
4238
Exon/intron sizes in nt:
103,174,99
Flanking exon/introns:
chr2:71671900-71671987|chr2:71676225-71676316
Splice length:
376
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AGTCGCTAAGCCTTCGCAGGTGTATTTTGGAGGTACAGTTGTTGGTGAGCAAGCTATGAAATCTGAAGATGAAGTAGGAAGTTTAATAGAGTATGAATTTAGGGTGATTAACTTAGGCAAGCCTCTTAAAAACCTCGGCACAGCAACCTTGAATATACAGTGGCCCAAGGAGATTAGCAATGGCAAATGGTTGCTTTATTTGATGAAAGTTGAATCCAAAGGTTTGGAGCAGATTGTTTGTGAGCCACACAATGAAATAAACTACCTGAAGCTGAAGGAGTCTCACAACTCAAGAAAGAAACGGGAACTTCCTGAAAAACAGATAGATGACAGCAGGAAATTTTCTTTATTTCCTGAAAGAAAATACCAGACTCTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACAACTCAAGAAAGAAACGGGA
59.37
GCTTGCTCACCAACAACTGT
59.26
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCACAACTCAAGAAAGAAACGGG
59.37
GCTTGCTCACCAACAACTGT
59.26
148
PCR template sequence:
GGAGTCTCACAACTCAAGAAAGAAACGGGAACTTCCTGAAAAACAGATAGATGACAGCAGGAAATTTTCTTTATTTCCTGAAAGAAAATACCAGACTCTCAGTCGCTAAGCCTTCGCAGGTGTATTTTGGAGGTACAGTTGTTGGTGAGCAAGCTATGAAATCTGAAGATGAAGTAGGAAGTTTAATAGAGTATGAATTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-196a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATACCAGACTCTCAGTCGCTAAGCCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCITGA6_376_ORF_1
0.7491
0.02756059
0.336080075
426
ORF sequence:
ATGACAGCAGGAAATTTTCTTTATTTCCTGAAAGAAAATACCAGACTCTCAGTCGCTAAGCCTTCGCAGGTGTATTTTGGAGGTACAGTTGTTGGTGAGCAAGCTATGAAATCTGAAGATGAAGTAGGAAGTTTAATAGAGTATGAATTTAGGGTGATTAACTTAGGCAAGCCTCTTAAAAACCTCGGCACAGCAACCTTGAATATACAGTGGCCCAAGGAGATTAGCAATGGCAAATGGTTGCTTTATTTGATGAAAGTTGAATCCAAAGGTTTGGAGCAGATTGTTTGTGAGCCACACAATGAAATAAACTACCTGAAGCTGAAGGAGTCTCACAACTCAAGAAAGAAACGGGAACTTCCTGAAAAACAGATAGATGACAGCAGGAAATTTTCTTTATTTCCTGAAAGAAAATACCAGACTCTC
Peptide sequence:
MTAGNFLYFLKENTRLSVAKPSQVYFGGTVVGEQAMKSEDEVGSLIEYEFRVINLGKPLKNLGTATLNIQWPKEISNGKWLLYLMKVESKGLEQIVCEPHNEINYLKLKESHNSRKKRELPEKQIDDSRKFSLFPERKYQTL
IRESfinder result
IRESfinder score
0.609194566
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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