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mmu_circCltc_1039
Basic information of circular RNA
PanCircBase ID:
mmu_circCltc_1039
mm39_Chr. Position ID:
chr11|86596798|86602401|-
Gene name:
Cltc
Transcript:
ENSMUST00000103186.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
22,21,20,19,18,17
Exon/intron offsets:
0,694,1079,1497,2977,5368
Genomic length:
5603
Exon/intron sizes in nt:
1,58,19,31,84,14,61,23,000
Flanking exon/introns:
chr11:86596136-86596798|chr11:86602401-86602672
Splice length:
1039
Other database IDs:
CIRCpedia: MMU_CIRCpedia_215401, circAtlas: mmu-Cltc_0021
Human Ortholog IDs:
Mature spliced Sequence:
ATTGAAGCTGCTTCTTCCTTGGCTTGAGGCCAGAATTCATGAGGGCTGTGAGGAGCCTGCTACTCACAATGCACTTGCCAAAATATACATTGACAGTAACAACAACCCAGAGAGATTTCTTCGTGAAAACCCTTATTATGACAGTCGTGTTGTTGGGAAGTACTGTGAGAAGAGAGACCCCCATCTGGCTTGTGTTGCTTATGAACGTGGCCAGTGTGACCTGGAGCTCATCAATGTTTGCAATGAGAATTCCCTCTTCAAAAGCCTTTCTCGCTACTTAGTCCGTCGAAAGGATCCAGAATTGTGGGGTAGTGTGCTACTGGAAAGCAATCCATACAGAAGACCGTTAATTGACCAGGTTGTACAGACAGCCTTGTCTGAAACTCAGGACCCAGAAGAAGTGTCAGTAACTGTGAAGGCTTTTATGACAGCAGATCTTCCTAATGAGCTCATTGAACTGCTGGAGAAAATCGTTCTTGATAACTCCGTATTCAGTGAGCACAGGAATCTGCAAAATCTCCTCATCCTCACTGCAATTAAGGCTGACCGAACACGTGTTATGGAGTATATTAACCGCCTGGATAATTATGATGCTCCAGATATTGCCAACATTGCCATCAGCAATGAGCTGTTTGAAGAGGCATTTGCTATTTTCCGGAAGTTTGATGTCAATACTTCAGCAGTGCAGGTGTTGATTGAACATATTGGAAACCTGGATCGTGCATATGAGTTTGCTGAACGCTGCAATGAGCCTGCTGTTTGGAGTCAACTTGCAAAAGCTCAGTTGCAGAAAGGAATGGTGAAGGAAGCCATTGATTCTTACATCAAAGCAGATGATCCTTCATCTTACATGGAAGTTGTCCAGGCTGCCAATGCCAGCGGAAACTGGGAAGAATTGGTGAAGTATTTGCAGATGGCACGCAAGAAGGCTCGAGAGTCCTATGTGGAGACAGAATTGATATTTGCACTGGCTAAAACAAACCGCCTTGCAGAATTAGAAGAGTTCATCAATGGGCCAAATAATGCTCATATTCAGCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGGCTAAAACAAACCGCC
59.33
GTGAGTAGCAGGCTCCTCAC
59.83
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGGCTAAAACAAACCGCC
59.33
TGTGAGTAGCAGGCTCCTCA
60.25
141
PCR template sequence:
CTATGTGGAGACAGAATTGATATTTGCACTGGCTAAAACAAACCGCCTTGCAGAATTAGAAGAGTTCATCAATGGGCCAAATAATGCTCATATTCAGCAAATTGAAGCTGCTTCTTCCTTGGCTTGAGGCCAGAATTCATGAGGGCTGTGAGGAGCCTGCTACTCACAATGCACTTGCCAAAATATACATTGACAGTAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-135a-5p(1), mmu-miR-19b-3p(1), mmu-miR-101a-3p(1), mmu-miR-33-5p(1), mmu-miR-130a-3p(1), mmu-miR-19a-3p(1), mmu-miR-214-3p(1), mmu-miR-182-5p(1), mmu-miR-130b-3p(1), mmu-miR-297a-5p(1), mmu-miR-129-5p(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCATATTCAGCAAATTGAAGCTGCTT
siRNA sets
CTTCAATTTGCTGAATATG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCLTC_1039_ORF_1
1.1592
0.254034068
0.996351218
1068
ORF sequence:
ATGGGCCAAATAATGCTCATATTCAGCAAATTGAAGCTGCTTCTTCCTTGGCTTGAGGCCAGAATTCATGAGGGCTGTGAGGAGCCTGCTACTCACAATGCACTTGCCAAAATATACATTGACAGTAACAACAACCCAGAGAGATTTCTTCGTGAAAACCCTTATTATGACAGTCGTGTTGTTGGGAAGTACTGTGAGAAGAGAGACCCCCATCTGGCTTGTGTTGCTTATGAACGTGGCCAGTGTGACCTGGAGCTCATCAATGTTTGCAATGAGAATTCCCTCTTCAAAAGCCTTTCTCGCTACTTAGTCCGTCGAAAGGATCCAGAATTGTGGGGTAGTGTGCTACTGGAAAGCAATCCATACAGAAGACCGTTAATTGACCAGGTTGTACAGACAGCCTTGTCTGAAACTCAGGACCCAGAAGAAGTGTCAGTAACTGTGAAGGCTTTTATGACAGCAGATCTTCCTAATGAGCTCATTGAACTGCTGGAGAAAATCGTTCTTGATAACTCCGTATTCAGTGAGCACAGGAATCTGCAAAATCTCCTCATCCTCACTGCAATTAAGGCTGACCGAACACGTGTTATGGAGTATATTAACCGCCTGGATAATTATGATGCTCCAGATATTGCCAACATTGCCATCAGCAATGAGCTGTTTGAAGAGGCATTTGCTATTTTCCGGAAGTTTGATGTCAATACTTCAGCAGTGCAGGTGTTGATTGAACATATTGGAAACCTGGATCGTGCATATGAGTTTGCTGAACGCTGCAATGAGCCTGCTGTTTGGAGTCAACTTGCAAAAGCTCAGTTGCAGAAAGGAATGGTGAAGGAAGCCATTGATTCTTACATCAAAGCAGATGATCCTTCATCTTACATGGAAGTTGTCCAGGCTGCCAATGCCAGCGGAAACTGGGAAGAATTGGTGAAGTATTTGCAGATGGCACGCAAGAAGGCTCGAGAGTCCTATGTGGAGACAGAATTGATATTTGCACTGGCTAAAACAAACCGCCTTGCAGAATTAGAAGAGTTCATCAATGGGCCAAATAATGCTCATATTCAGCAA
Peptide sequence:
MGQIMLIFSKLKLLLPWLEARIHEGCEEPATHNALAKIYIDSNNNPERFLRENPYYDSRVVGKYCEKRDPHLACVAYERGQCDLELINVCNENSLFKSLSRYLVRRKDPELWGSVLLESNPYRRPLIDQVVQTALSETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIANIAISNELFEEAFAIFRKFDVNTSAVQVLIEHIGNLDRAYEFAERCNEPAVWSQLAKAQLQKGMVKEAIDSYIKADDPSSYMEVVQAANASGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFINGPNNAHIQQ
IRESfinder result
IRESfinder score
0.54890915
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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