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mmu_circItch_467
Basic information of circular RNA
PanCircBase ID:
mmu_circItch_467
mm39_Chr. Position ID:
chr2|155014376|155022631|+
Gene name:
Itch
Transcript:
ENSMUST00000029126.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,6,7,8
Exon/intron offsets:
0,1477,6585,8097
Genomic length:
8255
Exon/intron sizes in nt:
12,51,38,46,158
Flanking exon/introns:
chr2:155010745-155014376|chr2:155022631-155024077
Splice length:
467
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TATTGTTACCCCTACGAGTAAATTATGTTTTCGTGTGTGGAGTCACCAGACCCTGAAGTCTGATGTTTTATTGGGAACTGCTGGATTAGATATTTATGAAACATTAAAGTCAAACAATATGAAACTTGAAGAAGTAGTTATGACTTTGCAGCTTGTAGGTGACAAAGAGCCAACAGAGACGATGGGAGATTTGTCAGTTTGTCTTGATGGGCTGCAAGTAGAAGCTGAGGTTGTTACTAACGGTGAAACGTCATGCTCCGAGAGTACTACACAGAATGATGATGGCTGCAGAACCAGAGATGATACAAGAGTGAGCACAAATGGATCAGAGGACCCTGAGGTTGCAGCGTCAGGGGAAAACAAGAGGGCCAATGGGAACAATTCTCCGTCCCTTTCAAATGGTGGTTTTAAGCCTTCTAGACCTCCTAGACCTTCGAGACCACCTCCACCCACCCCACGAAGACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGAACAATTCTCCGTCCC
59.67
CTGGTGACTCCACACACGAA
59.9
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGAACAATTCTCCGTCCC
59.67
TTCAGGGTCTGGTGACTCCA
60.11
152
PCR template sequence:
GCCAATGGGAACAATTCTCCGTCCCTTTCAAATGGTGGTTTTAAGCCTTCTAGACCTCCTAGACCTTCGAGACCACCTCCACCCACCCCACGAAGACCAGTATTGTTACCCCTACGAGTAAATTATGTTTTCGTGTGTGGAGTCACCAGACCCTGAAGTCTGATGTTTTATTGGGAACTGCTGGATTAGATATTTATGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-328-3p(1), mmu-miR-184-3p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
CCACGAAGACCAGTATTGTTACCCCT
siRNA sets
TAACAATACTGGTCTTCGT, GTAACAATACTGGTCTTCG, AGGGGTAACAATACTGGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCITCH_467_ORF_1
1.0155
0.02083661
0.408863521
405
ORF sequence:
ATGAAACTTGAAGAAGTAGTTATGACTTTGCAGCTTGTAGGTGACAAAGAGCCAACAGAGACGATGGGAGATTTGTCAGTTTGTCTTGATGGGCTGCAAGTAGAAGCTGAGGTTGTTACTAACGGTGAAACGTCATGCTCCGAGAGTACTACACAGAATGATGATGGCTGCAGAACCAGAGATGATACAAGAGTGAGCACAAATGGATCAGAGGACCCTGAGGTTGCAGCGTCAGGGGAAAACAAGAGGGCCAATGGGAACAATTCTCCGTCCCTTTCAAATGGTGGTTTTAAGCCTTCTAGACCTCCTAGACCTTCGAGACCACCTCCACCCACCCCACGAAGACCAGTATTGTTACCCCTACGAGTAAATTATGTTTTCGTGTGTGGAGTCACCAGACCCTGA
Peptide sequence:
MKLEEVVMTLQLVGDKEPTETMGDLSVCLDGLQVEAEVVTNGETSCSESTTQNDDGCRTRDDTRVSTNGSEDPEVAASGENKRANGNNSPSLSNGGFKPSRPPRPSRPPPPTPRRPVLLPLRVNYVFVCGVTRP
IRESfinder result
IRESfinder score
0.509170216
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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