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mmu_circXpr1_687
Basic information of circular RNA
PanCircBase ID:
mmu_circXpr1_687
mm39_Chr. Position ID:
chr1|155188504|155206233|-
Gene name:
Xpr1
Transcript:
ENSMUST00000027741.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
9,8,7,6,5
Exon/intron offsets:
0,412,11555,15840,17579
Genomic length:
17729
Exon/intron sizes in nt:
18,01,91,82,84,150
Flanking exon/introns:
chr1:155184868-155188504|chr1:155206233-155207908
Splice length:
687
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_110122
Human Ortholog IDs:
Mature spliced Sequence:
AATCTGAATTTTACAGGGTTTCGGAAAATCCTCAAAAAGCATGACAAGATCCTGGAAACATCTCGTGGAGCAGATTGGCGAGTGATTCATGTAGAGGTGGCCCCATTTTATACATGCAAGAAAATTAACCAGCTCATTTCTGAGACTGAGGCTGTGGTCACCAATGAACTTGAAGATGGTGACAGACAAAAGGCTATGAAGCGGTTACGGGTCCCTCCATTGGGAGCTGCTCAGCCTGCACCAGCATGGACTACTTTTAGAGTTGGCCTATTTTGTGGAATATTCATTGTGCTGAATATTACCCTTGTGTTTGCAGCTGTATTTAAACTTGAAACAGATAGAACTGTATGGCCCTTGATAAGAATCTATCGGGGTGGCTTTCTTCTGATTGAATTCCTTTTTCTACTGGGCATCAACACATATGGTTGGAGACAAGCTGGAGTAAATCATGTCCTCATCTTTGAACTTAATCCAAGAAACAATTTGTCTCATCAGCATCTCTTTGAGATTGCTGGATTCCTGGGGATCTTGTGGTGCCTGAGCCTTCTGGCATGCTTCTTCGCTCCAATTAGTATCATCCCTATATATGTGTATCCACTAGCCCTTTATGGGTTTATGGTCTTCTTTCTTATCAACCCCACCAAAACTTTCTACTATAAATCCAGATTTTGGCTGCTCAAACTTCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAACCCCACCAAAACTTTCT
57.89
ATCACTCGCCAATCTGCTCC
60.18
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCAACCCCACCAAAACTTTCT
58.35
ATCACTCGCCAATCTGCTCC
60.18
143
PCR template sequence:
TGTGTATCCACTAGCCCTTTATGGGTTTATGGTCTTCTTTCTTATCAACCCCACCAAAACTTTCTACTATAAATCCAGATTTTGGCTGCTCAAACTTCTGAATCTGAATTTTACAGGGTTTCGGAAAATCCTCAAAAAGCATGACAAGATCCTGGAAACATCTCGTGGAGCAGATTGGCGAGTGATTCATGTAGAGGTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-196a-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-24-3p(1), mmu-miR-1198-5p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTCAAACTTCTGAATCTGAATTTTA
siRNA sets
AAAATTCAGATTCAGAAGT, TAAAATTCAGATTCAGAAG, AAATTCAGATTCAGAAGTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCXPR1_687_ORF_1
0.7578
-0.030065689
0.989218955
1179
ORF sequence:
ATGAAGCGGTTACGGGTCCCTCCATTGGGAGCTGCTCAGCCTGCACCAGCATGGACTACTTTTAGAGTTGGCCTATTTTGTGGAATATTCATTGTGCTGAATATTACCCTTGTGTTTGCAGCTGTATTTAAACTTGAAACAGATAGAACTGTATGGCCCTTGATAAGAATCTATCGGGGTGGCTTTCTTCTGATTGAATTCCTTTTTCTACTGGGCATCAACACATATGGTTGGAGACAAGCTGGAGTAAATCATGTCCTCATCTTTGAACTTAATCCAAGAAACAATTTGTCTCATCAGCATCTCTTTGAGATTGCTGGATTCCTGGGGATCTTGTGGTGCCTGAGCCTTCTGGCATGCTTCTTCGCTCCAATTAGTATCATCCCTATATATGTGTATCCACTAGCCCTTTATGGGTTTATGGTCTTCTTTCTTATCAACCCCACCAAAACTTTCTACTATAAATCCAGATTTTGGCTGCTCAAACTTCTGAATCTGAATTTTACAGGGTTTCGGAAAATCCTCAAAAAGCATGACAAGATCCTGGAAACATCTCGTGGAGCAGATTGGCGAGTGATTCATGTAGAGGTGGCCCCATTTTATACATGCAAGAAAATTAACCAGCTCATTTCTGAGACTGAGGCTGTGGTCACCAATGAACTTGAAGATGGTGACAGACAAAAGGCTATGAAGCGGTTACGGGTCCCTCCATTGGGAGCTGCTCAGCCTGCACCAGCATGGACTACTTTTAGAGTTGGCCTATTTTGTGGAATATTCATTGTGCTGAATATTACCCTTGTGTTTGCAGCTGTATTTAAACTTGAAACAGATAGAACTGTATGGCCCTTGATAAGAATCTATCGGGGTGGCTTTCTTCTGATTGAATTCCTTTTTCTACTGGGCATCAACACATATGGTTGGAGACAAGCTGGAGTAAATCATGTCCTCATCTTTGAACTTAATCCAAGAAACAATTTGTCTCATCAGCATCTCTTTGAGATTGCTGGATTCCTGGGGATCTTGTGGTGCCTGAGCCTTCTGGCATGCTTCTTCGCTCCAATTAGTATCATCCCTATATATGTGTATCCACTAGCCCTTTATGGGTTTATGGTCTTCTTTCTTATCAACCCCACCAAAACTTTCTACTATAAATCCAGATTTTGGCTGCTCAAACTTCTG
Peptide sequence:
MKRLRVPPLGAAQPAPAWTTFRVGLFCGIFIVLNITLVFAAVFKLETDRTVWPLIRIYRGGFLLIEFLFLLGINTYGWRQAGVNHVLIFELNPRNNLSHQHLFEIAGFLGILWCLSLLACFFAPISIIPIYVYPLALYGFMVFFLINPTKTFYYKSRFWLLKLLNLNFTGFRKILKKHDKILETSRGADWRVIHVEVAPFYTCKKINQLISETEAVVTNELEDGDRQKAMKRLRVPPLGAAQPAPAWTTFRVGLFCGIFIVLNITLVFAAVFKLETDRTVWPLIRIYRGGFLLIEFLFLLGINTYGWRQAGVNHVLIFELNPRNNLSHQHLFEIAGFLGILWCLSLLACFFAPISIIPIYVYPLALYGFMVFFLINPTKTFYYKSRFWLLKLL
IRESfinder result
IRESfinder score
0.804538787
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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