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mmu_ciCtnnd1_784
Basic information of circular RNA
PanCircBase ID:
mmu_ciCtnnd1_784
mm39_Chr. Position ID:
chr2|84440067|84440851|-
Gene name:
Ctnnd1
Transcript:
ENSMUST00000099941.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
12
Exon/intron offsets:
0
Genomic length:
784
Exon/intron sizes in nt:
784
Flanking exon/introns:
chr2:84440066-84440851
Splice length:
784
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGGATCTGAACCAGTGCCTAGCACAGTGTCTGGATTCCACTAAATGTTTACTCATTTGTTGACATCACTGAAGAGAAGGATACTATAGTCTTCCATAGTTTATGTTTCTTAGTGTTGAAGGTTCACGGTTTAGTGCACCTTAAAAAAAGCAAGAAGTGATGATTCTTCTAGAACATTATAACCACTATTATTTGTTGACTATCTGCTTTCTCTATCTATAGGCATTGTTAAGAACTTTTTTTTTTTTTTTCATTTGCCCAGAATTAAACTAGTAACTTAGTGGCAGAGTCCAAGTTACTGATTTTTTAAAAAATTCATAAAGAATGTTATGCCTCACTGGGCAGTGGTAGGACACACCCTTAATCCCAGCAGTTGGGAGGCAGAGGCAGGCGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTATACAGAGAAACCCTGTCTCAAAAAAATAAAATTAAAAAAAAAATTGCTATGTCTCATAGATTATCATAAGATTATACTGAACATACTGTTTTCACTAGTGTGTCTGAAGAGACCAGATAGTATATTTAATATCCAGCATTGCATTGTCTCTGTTCACTTGAGGAAATAGATGAAGGGCAGTGAGTTTATGGCTGTTTCATGTTCTTTGCGCCTTTGAGATAATCTCATGTGATAATGGAGTTGGTTTGTATGGCTAGAACTTACACTTGGCCTGATTCCTGCTATCACTGTACTGTGAGCCACCTCCTGACCTTTTCTTTTACTGCTGTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACTTGGCCTGATTCCTGCT
60.32
TCCTTCTCTTCAGTGATGTCAACA
59.66
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGGAGTTGGTTTGTATGGCT
57.54
AGTGGAATCCAGACACTGTGC
60.27
140
PCR template sequence:
GATAATGGAGTTGGTTTGTATGGCTAGAACTTACACTTGGCCTGATTCCTGCTATCACTGTACTGTGAGCCACCTCCTGACCTTTTCTTTTACTGCTGTAGTAAGGATCTGAACCAGTGCCTAGCACAGTGTCTGGATTCCACTAAATGTTTACTCATTTGTTGACATCACTGAAGAGAAGGATACTATAGTCTTCCATA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-3087-3p(2), mmu-miR-7b-5p(1), mmu-miR-150-5p(1), mmu-miR-30e-5p(1), mmu-miR-101a-3p(1), mmu-miR-18a-5p(1), mmu-miR-101b-3p(1), mmu-miR-7a-5p(1), mmu-miR-494-3p(1), mmu-miR-802-5p(1), mmu-miR-3470b(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTTACTGCTGTAGTAAGGATCTGAA
siRNA sets
TTCAGATCCTTACTACAGC,CAGATCCTTACTACAGCAG,TCAGATCCTTACTACAGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CICTNND1_784_ORF_1
0.6685
-0.317650723
0.010395162
108
ORF sequence:
ATGGAGTTGGTTTGTATGGCTAGAACTTACACTTGGCCTGATTCCTGCTATCACTGTACTGTGAGCCACCTCCTGACCTTTTCTTTTACTGCTGTAGTAAGGATCTGA
Peptide sequence:
MELVCMARTYTWPDSCYHCTVSHLLTFSFTAVVRI
IRESfinder result
IRESfinder score
0.884884696
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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