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mmu_circGit2_218
Basic information of circular RNA
PanCircBase ID:
mmu_circGit2_218
mm39_Chr. Position ID:
chr5|114902407|114902734|-
Gene name:
Git2
Transcript:
ENSMUST00000112185.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
6,5
Exon/intron offsets:
0,240
Genomic length:
327
Exon/intron sizes in nt:
131,87
Flanking exon/introns:
chr5:114899728-114902407|chr5:114902734-114904512
Splice length:
218
Other database IDs:
circBase: hsa_circ_0028159, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_6584
Human Ortholog IDs:
Mature spliced Sequence:
CAACTCCATTCAAGTGTGAGAACAGGGAATCTTGAGACCTGTCTGAGACTGTTGTCTTTAGGAGCCCAAGCCAACTTCTTTCATCCTGAAAAAGGAAGCACTCCACTCCACGTCGCCTCCAAAGCAGGACAGATCTTACAGGCTGAATTGCTGGCCGTGTATGGAGCTGACCCAGGCACACAAGATTCTAGTGGGAAGACTCCTGTTGACTATGCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATTGCTGGCCGTGTATGGA
60.03
GGCTTGGGCTCCTAAAGACA
59.67
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATTGCTGGCCGTGTATGGA
60.03
TGGCTTGGGCTCCTAAAGAC
59.67
146
PCR template sequence:
CCAAAGCAGGACAGATCTTACAGGCTGAATTGCTGGCCGTGTATGGAGCTGACCCAGGCACACAAGATTCTAGTGGGAAGACTCCTGTTGACTATGCAAGCAACTCCATTCAAGTGTGAGAACAGGGAATCTTGAGACCTGTCTGAGACTGTTGTCTTTAGGAGCCCAAGCCAACTTCTTTCATCCTGAAAAAGGAAGCA
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-132-3p(1), mmu-miR-153-3p(1), mmu-miR-212-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGACTATGCAAGCAACTCCATTCAA
siRNA sets
TGGAGTTGCTTGCATAGTC, TTGAATGGAGTTGCTTGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGIT2_218_ORF_1
0.9271
0.033488065
0.061733927
93
ORF sequence:
ATGGAGCTGACCCAGGCACACAAGATTCTAGTGGGAAGACTCCTGTTGACTATGCAAGCAACTCCATTCAAGTGTGAGAACAGGGAATCTTGA
Peptide sequence:
MELTQAHKILVGRLLLTMQATPFKCENRES
IRESfinder result
IRESfinder score
0.639876739
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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