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mmu_circItch_138
Basic information of circular RNA
PanCircBase ID:
mmu_circItch_138
mm39_Chr. Position ID:
chr2|155015853|155015991|+
Gene name:
Itch
Transcript:
ENSMUST00000029126.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
138
Exon/intron sizes in nt:
138
Flanking exon/introns:
chr2:155014501-155015853|chr2:155015991-155020961
Splice length:
138
Other database IDs:
circBase: hsa_circ_0059936, CIRCpedia: HSA_CIRCpedia_33798
Human Ortholog IDs:
Mature spliced Sequence:
TTGAAGAAGTAGTTATGACTTTGCAGCTTGTAGGTGACAAAGAGCCAACAGAGACGATGGGAGATTTGTCAGTTTGTCTTGATGGGCTGCAAGTAGAAGCTGAGGTTGTTACTAACGGTGAAACGTCATGCTCCGAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCTTGATGGGCTGCAAGT
59.89
CCCATCGTCTCTGTTGGCTC
60.46
125
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCTTGATGGGCTGCAAGT
59.89
CTCCCATCGTCTCTGTTGGC
60.46
127
PCR template sequence:
CAGTTTGTCTTGATGGGCTGCAAGTAGAAGCTGAGGTTGTTACTAACGGTGAAACGTCATGCTCCGAGATTGAAGAAGTAGTTATGACTTTGCAGCTTGTAGGTGACAAAGAGCCAACAGAGACGATGGGAGATTTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
TCATGCTCCGAGATTGAAGAAGTAGT
siRNA sets
ACTACTTCTTCAATCTCGG, ACTTCTTCAATCTCGGAGC, CTACTTCTTCAATCTCGGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCITCH_138_ORF_1
1.1747
0.083990265
0.301920494
261
ORF sequence:
ATGACTTTGCAGCTTGTAGGTGACAAAGAGCCAACAGAGACGATGGGAGATTTGTCAGTTTGTCTTGATGGGCTGCAAGTAGAAGCTGAGGTTGTTACTAACGGTGAAACGTCATGCTCCGAGATTGAAGAAGTAGTTATGACTTTGCAGCTTGTAGGTGACAAAGAGCCAACAGAGACGATGGGAGATTTGTCAGTTTGTCTTGATGGGCTGCAAGTAGAAGCTGAGGTTGTTACTAACGGTGAAACGTCATGCTCCGAG
Peptide sequence:
MTLQLVGDKEPTETMGDLSVCLDGLQVEAEVVTNGETSCSEIEEVVMTLQLVGDKEPTETMGDLSVCLDGLQVEAEVVTNGETSCSE
IRESfinder result
IRESfinder score
0.271187722
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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