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mmu_ciFam126a_1070
Basic information of circular RNA
PanCircBase ID:
mmu_ciFam126a_1070
mm39_Chr. Position ID:
chr5|24191812|24192882|-
Gene name:
Fam126a
Transcript:
ENSMUST00000101513.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
1070
Exon/intron sizes in nt:
1070
Flanking exon/introns:
chr5:24191812-24192882
Splice length:
1070
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTTGTATTCACAGAGTAACCATGTGCTTTTTGGAAAACTGCTTTTCGTTTTAGTAAAACTACTATTCATTTAAAAGAACAAAGAACCTAAGGGTATTGGGGCACACATATAATTATCTAAACAAATTTTTATGGGTTGAATGAAATAATAGTAATAGTGATTTAATAATAATGAGAAAAATACCACCACCAGTGGGGTTTGGTTTTATTTTATTTTATTTTGAGACAGGGTCTCACAGTGTAGCCCTGACTGGCTTTGAACATGTTACTTAGAATAAATAGACTGTCCTCAAACTCAGAGACCTGCCTGTCTTTCAGGTGCTAGGATTAAAGGCGTGTGCTGCCATGCCTAATTACTGCTATTGTGGAATCTTTAATTTCAACATCTGTTTAAGTGCATCTTTAAGCTGGTTTTTGCCTTCACACACACACACACACACACACACACACACACACACACACACACACACACACACACACACACACACTCACAGCCAGTAGAAAGACCTAAGATGAGATTCACTAGTCACACCTTGGAAGTCCCATGTCTCCTGAGCACGTGCACTGTATCTAACAGTTTGTGTGACTCCGCCTGAGTATCAGTTCTGACTGACATTCTGAATACTTACGGATTGTGTTCTTTAAGATGGAAAGGAGAGGTGAGGTCCTTCTGTAGACACATGGCATGTTTGATTGACTTAGAGACTATAACTTGTTAGTACAGAACAGTCACTACACTGTCTGTGCCTCAGCCATCCCGAGAACAGTGGGACTTTAATGTCGTTGGACATTTTCTATGTGGTCTGCTATGCTTTTGTTTTGAAAATGCAACAGTACACATGTTACCTACTGATGCTAATGGTAACTGATAATGGAGTTTTAACTGTCTTTAAATTCCTTTAATTCTGGTCTTTAAAAATTGTCTTAGAGGGAAGAAAGGGGAGGGAGAGATGTTGTAATTATAACCTCAAAAAATTAAACCTGGATAAATTGTCCTAATAACTAAATTTTATTTTTAAAATGTTGCATGCAAAAGGTGACTTTTAAGATATTTCCTTTTACTTTTGTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTGCATGCAAAAGGTGAC
57.78
CCCTTAGGTTCTTTGTTCTTTTAA
55.22
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTGCATGCAAAAGGTGAC
57.78
CCCTTAGGTTCTTTGTTCTTTTAAA
55.9
143
PCR template sequence:
AAAAATTAAACCTGGATAAATTGTCCTAATAACTAAATTTTATTTTTAAAATGTTGCATGCAAAAGGTGACTTTTAAGATATTTCCTTTTACTTTTGTAGGTTTGTATTCACAGAGTAACCATGTGCTTTTTGGAAAACTGCTTTTCGTTTTAGTAAAACTACTATTCATTTAAAAGAACAAAGAACCTAAGGGTATTGG
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-1187(4), mmu-miR-574-5p(4), mmu-miR-34c-5p(1), mmu-miR-18a-5p(1), mmu-miR-139-5p(1), mmu-miR-377-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTACTTTTGTAGGTTTGTATTCACA
siRNA sets
AATACAAACCTACAAAAGT,ATACAAACCTACAAAAGTA,GAATACAAACCTACAAAAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIFAM126A_1070_ORF_5
0.9006
-0.484943321
0.00852056
117
ORF sequence:
ATGCAAAAGGTGACTTTTAAGATATTTCCTTTTACTTTTGTAGGTTTGTATTCACAGAGTAACCATGTGCTTTTTGGAAAACTGCTTTTCGTTTTAGTAAAACTACTATTCATTTAA
Peptide sequence:
MQKVTFKIFPFTFVGLYSQSNHVLFGKLLFVLVKLLFI
IRESfinder result
IRESfinder score
0.906412057
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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