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mmu_ciTlk2_872
Basic information of circular RNA
PanCircBase ID:
mmu_ciTlk2_872
mm39_Chr. Position ID:
chr11|105099747|105100619|+
Gene name:
Tlk2
Transcript:
ENSMUST00000106939.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
872
Exon/intron sizes in nt:
872
Flanking exon/introns:
chr11:105099747-105100619
Splice length:
872
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGTGGCCATCTTACATTAAACCCAGGCTGTCTGCGTACGTGAAGTGGTCTAACTCCCAGCATGTGATTTGTTTGCTTTGAAGGATCCCTGACAGAGGTTTCTGTGTTTTAGGGTATTAGGCTATTGCAGACTTGCTATTTGACACACACTGACGAAACGGTGTCAGTTCTTTGGGGACTCTTGTTTTCCCTGTGTACTTGAGTGATTTTCTTACTACAGACTTTTCTTCAGACCAAACAGGAATCATATGGGAAAGAGGGCACAATGAAGTCTTGTTAGTAGTGGTAGCCAGAAATGGTTTCATCTACAGAACTCTTCCATAGGAACCTACTGGGATGAAATTTGTATCAGTGATAGTTACACTGTTAAATATATAGTCAAGGATAAGAAAAAAAAATGGTTTAGCCTTTCCCTGTCCTGGTTAAGGACTGGAATTCCCAGTCTTTTTGCATTGATGTTCCCTTTTAAAAATCAGTAGTTAAAGTCATTCTGTCTTGTGTGAGGGAAGTCCTTCCAAGTTTACAAAGTTATGTAAAAGGTGACCAGCTCTTTAGTTCTGATGCATTTGTTTGAATCTTGGTTTCTTAAATTGGGATGTGGATTATAGATGATTTTTGTTTCCTGATTTTAGCATGTATATTTTTAAAACAAGGTGTGAAAAATTCCCATCAGTGTTCATTTAGTCACTTGTTACATAGAAGAGATAAGGTAATCTTAGTGTACGGGCTTGTATCATTTGTTAAAAGTAAAGCTGACACTTAAGATGACAGCGTTGTGATTGGTCAGTTACTGCGCTTTGACATGCATTTCAGTGATGATGGCTTATGTGTGCATTGGAAAAACTGTACCTAACTTTGGTTTCATTTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGATTGGTCAGTTACTGCGCT
60
AGACCACTTCACGTACGCAG
60.04
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGATTGGTCAGTTACTGCGCT
60
GACCACTTCACGTACGCAGA
60.04
146
PCR template sequence:
CGTTGTGATTGGTCAGTTACTGCGCTTTGACATGCATTTCAGTGATGATGGCTTATGTGTGCATTGGAAAAACTGTACCTAACTTTGGTTTCATTTTCAGGTAGTGGCCATCTTACATTAAACCCAGGCTGTCTGCGTACGTGAAGTGGTCTAACTCCCAGCATGTGATTTGTTTGCTTTGAAGGATCCCTGACAGAGGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-26a-5p(1), mmu-miR-411-3p(1), mmu-miR-377-3p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTTCATTTTCAGGTAGTGGCCATCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CITLK2_872_ORF_3
0.5901
-0.359256852
0.006653864
90
ORF sequence:
ATGTGTGCATTGGAAAAACTGTACCTAACTTTGGTTTCATTTTCAGGTAGTGGCCATCTTACATTAAACCCAGGCTGTCTGCGTACGTGA
Peptide sequence:
MCALEKLYLTLVSFSGSGHLTLNPGCLRT
IRESfinder result
IRESfinder score
0.890992952
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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