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mmu_circTcp1_391
Basic information of circular RNA
PanCircBase ID:
mmu_circTcp1_391
mm39_Chr. Position ID:
chr17|13138237|13139344|+
Gene name:
Tcp1
Transcript:
ENSMUST00000089024.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,464,925
Genomic length:
1107
Exon/intron sizes in nt:
9,81,11,182
Flanking exon/introns:
chr17:13137058-13138237|chr17:13139344-13139626
Splice length:
391
Other database IDs:
circAtlas: mmu-Tcp1_0009
circAtlas: hsa-TCP1_0011, CIRCpedia: HSA_CIRCpedia_54222
Human Ortholog IDs:
Mature spliced Sequence:
GTAATCATTGCAGCGGAGCTTCTGAAAAATGCAGATGAGCTAGTCAAACAGAAAATTCATCCAACATCAGTTATTAGTGGCTATCGTCTTGCCTGCAAGGAAGCGGTGCGTTATATCAATGAGAACCTGATTATTAACACAGACGAACTTGGAAGAGACTGTCTGATCAATGCTGCTAAGACATCCATGTCATCCAAAATTATTGGAATAAATGGTGATTACTTTGCTAATATGGTAGTAGATGCTGTGCTTGCTGTTAAATACACAGATGCCAGAGGCCAGCCTCGCTATCCAGTCAATTCTGTTAATATTCTGAAAGCCCATGGGAGAAGTCAGATAGAAAGCATGCTGATCAATGGCTATGCGCTCAATTGTGTGGTTGGATCTCAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGATCAATGGCTATGCGC
60.11
TTGCAGGCAAGACGATAGC
58.23
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCCATGGGAGAAGTCAGA
60.25
TTGCAGGCAAGACGATAGC
58.23
172
PCR template sequence:
CCAGTCAATTCTGTTAATATTCTGAAAGCCCATGGGAGAAGTCAGATAGAAAGCATGCTGATCAATGGCTATGCGCTCAATTGTGTGGTTGGATCTCAGGGTAATCATTGCAGCGGAGCTTCTGAAAAATGCAGATGAGCTAGTCAAACAGAAAATTCATCCAACATCAGTTATTAGTGGCTATCGTCTTGCCTGCAAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-31-5p(1), mmu-miR-214-3p(1), mmu-miR-107-3p(1), mmu-miR-383-5p(1), mmu-miR-344d-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GTTGGATCTCAGGGTAATCATTGCAG
siRNA sets
CTGCAATGATTACCCTGAG, CAATGATTACCCTGAGATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTCP1_391_ORF_1
1.058
0.147310786
0.594490017
426
ORF sequence:
ATGGCTATGCGCTCAATTGTGTGGTTGGATCTCAGGGTAATCATTGCAGCGGAGCTTCTGAAAAATGCAGATGAGCTAGTCAAACAGAAAATTCATCCAACATCAGTTATTAGTGGCTATCGTCTTGCCTGCAAGGAAGCGGTGCGTTATATCAATGAGAACCTGATTATTAACACAGACGAACTTGGAAGAGACTGTCTGATCAATGCTGCTAAGACATCCATGTCATCCAAAATTATTGGAATAAATGGTGATTACTTTGCTAATATGGTAGTAGATGCTGTGCTTGCTGTTAAATACACAGATGCCAGAGGCCAGCCTCGCTATCCAGTCAATTCTGTTAATATTCTGAAAGCCCATGGGAGAAGTCAGATAGAAAGCATGCTGATCAATGGCTATGCGCTCAATTGTGTGGTTGGATCTCAG
Peptide sequence:
MAMRSIVWLDLRVIIAAELLKNADELVKQKIHPTSVISGYRLACKEAVRYINENLIINTDELGRDCLINAAKTSMSSKIIGINGDYFANMVVDAVLAVKYTDARGQPRYPVNSVNILKAHGRSQIESMLINGYALNCVVGSQ
IRESfinder result
IRESfinder score
0.462861313
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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