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mmu_circTmem175_479
Basic information of circular RNA
PanCircBase ID:
mmu_circTmem175_479
mm39_Chr. Position ID:
chr5|108786102|108790018|+
Gene name:
Tmem175
Transcript:
ENSMUST00000146207.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,430,1235,3585,3880
Genomic length:
3916
Exon/intron sizes in nt:
254,39,98,52,36
Flanking exon/introns:
chr5:108777766-108786102|chr5:108790018-108790561
Splice length:
479
Other database IDs:
circAtlas: mmu-Tmem175_0003
Human Ortholog IDs:
Mature spliced Sequence:
CACTTGTCTCTGCATCGAAATGCCTAACGTCTACAGGGTTGAGACATCCCTCTGATATGCTCAGAGCTACACTTCTTCCCCGGCTGCCGTGACAACTTGTTGGTCCCACCATGTCCAGGCTCCAGACTGAGGAGCAGGCAGTGGATTCCGAGGGAGACTCATCCCTACACAGGAGAAATGAGGAGGGGACACAGAGCTCCCACCGCATGCTGGGCTTCAGTGATGCACTGCTGTCCATCATCGCCACTGTCATGATCCTGCCTGTGACCCACACAGAGATCTCACCAGAACAGCAGTTTGACAAAAGTATACAGAAACTCCTAGCAACTAGGATCGCTGTCTACCTCATGACATTTCTAATCGTAACTGTGGCCTGGACAGCACATACCAGATTGTTCCAGGTTGTTGGAAAAATAGATGATACACTTGCCTTGCTCAACCTGGCCTGTATGATGACTATCACCCTCCTGCCCTACACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACACTTGCCTTGCTCAACCT
60.11
CAGCCGGGGAAGAAGTGTAG
60.11
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACACTTGCCTTGCTCAACCT
60.11
CCGGGGAAGAAGTGTAGCTC
59.82
140
PCR template sequence:
AGCACATACCAGATTGTTCCAGGTTGTTGGAAAAATAGATGATACACTTGCCTTGCTCAACCTGGCCTGTATGATGACTATCACCCTCCTGCCCTACACACACTTGTCTCTGCATCGAAATGCCTAACGTCTACAGGGTTGAGACATCCCTCTGATATGCTCAGAGCTACACTTCTTCCCCGGCTGCCGTGACAACTTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-let-7e-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-382-5p(1), mmu-miR-98-5p(1), mmu-miR-490-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGCCCTACACACACTTGTCTCTGC
siRNA sets
GAGACAAGTGTGTGTAGGG, AGACAAGTGTGTGTAGGGC, AGAGACAAGTGTGTGTAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTMEM175_479_ORF_1
1.1125
0.209570086
0.62664712
396
ORF sequence:
ATGTCCAGGCTCCAGACTGAGGAGCAGGCAGTGGATTCCGAGGGAGACTCATCCCTACACAGGAGAAATGAGGAGGGGACACAGAGCTCCCACCGCATGCTGGGCTTCAGTGATGCACTGCTGTCCATCATCGCCACTGTCATGATCCTGCCTGTGACCCACACAGAGATCTCACCAGAACAGCAGTTTGACAAAAGTATACAGAAACTCCTAGCAACTAGGATCGCTGTCTACCTCATGACATTTCTAATCGTAACTGTGGCCTGGACAGCACATACCAGATTGTTCCAGGTTGTTGGAAAAATAGATGATACACTTGCCTTGCTCAACCTGGCCTGTATGATGACTATCACCCTCCTGCCCTACACACACTTGTCTCTGCATCGAAATGCCTAA
Peptide sequence:
MSRLQTEEQAVDSEGDSSLHRRNEEGTQSSHRMLGFSDALLSIIATVMILPVTHTEISPEQQFDKSIQKLLATRIAVYLMTFLIVTVAWTAHTRLFQVVGKIDDTLALLNLACMMTITLLPYTHLSLHRNA
IRESfinder result
IRESfinder score
0.487264443
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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