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mmu_circCcnyl1_419
Basic information of circular RNA
PanCircBase ID:
mmu_circCcnyl1_419
mm39_Chr. Position ID:
chr1|64740127|64753847|+
Gene name:
Ccnyl1
Transcript:
ENSMUST00000114077.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
3,4,5,6,7,8
Exon/intron offsets:
0,1377,7409,10449,12142,13600
Genomic length:
13720
Exon/intron sizes in nt:
7,53,51,01,36,52,120
Flanking exon/introns:
chr1:64730559-64740127|chr1:64753847-64757289
Splice length:
419
Other database IDs:
CIRCpedia: MMU_CIRCpedia_216172
circBase: hsa_circ_0002556, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_39433
Human Ortholog IDs:
Mature spliced Sequence:
ATCTAGCTTTGGAATCAAACCCTTCCGACCACCCGAGGGCAAGCACAATTTTCCTGAGCAAATCTCAAACGGATGTGCGTGAAAAGAGGAAGAGCAACCATTTAAACCATGTATCTCCAGGGCAGCTTACTAAAAAGTATAGCTCATGCTCAACAATATTTCTAGATGACAGCACAGTCAGCCAGCCTAACCTTAGAACCACAATAAAATGTGTGACCTTAGCAATATATTACCACATAAAGAACAGAGATGCAAATAGATCCCTGGACATTTTTGATGAGCGGTCACATCCTCTCACAAGAGAGAAAGTTCCAGAGGAGTACTTTAAGCATGACCCTGAACACAAATTTATTTACAGATTTGTTCGTACACTTTTTAGTGCTGCACAGCTGACAGCGGAATGTGCAATAGTGACGTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCATGACCCTGAACACAAA
57.64
TCACGCACATCCGTTTGAGA
59.97
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCATGACCCTGAACACAA
57.64
TCACGCACATCCGTTTGAGA
59.97
175
PCR template sequence:
GTACTTTAAGCATGACCCTGAACACAAATTTATTTACAGATTTGTTCGTACACTTTTTAGTGCTGCACAGCTGACAGCGGAATGTGCAATAGTGACGTTGATCTAGCTTTGGAATCAAACCCTTCCGACCACCCGAGGGCAAGCACAATTTTCCTGAGCAAATCTCAAACGGATGTGCGTGAAAAGAGGAAGAGCAACCA
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-137-3p(1), mmu-miR-32-5p(1), mmu-miR-92a-3p(1), mmu-miR-25-3p(1), mmu-miR-22-3p(1), mmu-miR-218-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AATAGTGACGTTGATCTAGCTTTGGA
siRNA sets
AAGCTAGATCAACGTCACT, CAAAGCTAGATCAACGTCA, AAAGCTAGATCAACGTCAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCNYL1_419_ORF_1
0.6853
-0.012305688
0.293619332
438
ORF sequence:
ATGTGCAATAGTGACGTTGATCTAGCTTTGGAATCAAACCCTTCCGACCACCCGAGGGCAAGCACAATTTTCCTGAGCAAATCTCAAACGGATGTGCGTGAAAAGAGGAAGAGCAACCATTTAAACCATGTATCTCCAGGGCAGCTTACTAAAAAGTATAGCTCATGCTCAACAATATTTCTAGATGACAGCACAGTCAGCCAGCCTAACCTTAGAACCACAATAAAATGTGTGACCTTAGCAATATATTACCACATAAAGAACAGAGATGCAAATAGATCCCTGGACATTTTTGATGAGCGGTCACATCCTCTCACAAGAGAGAAAGTTCCAGAGGAGTACTTTAAGCATGACCCTGAACACAAATTTATTTACAGATTTGTTCGTACACTTTTTAGTGCTGCACAGCTGACAGCGGAATGTGCAATAGTGACGTTG
Peptide sequence:
MCNSDVDLALESNPSDHPRASTIFLSKSQTDVREKRKSNHLNHVSPGQLTKKYSSCSTIFLDDSTVSQPNLRTTIKCVTLAIYYHIKNRDANRSLDIFDERSHPLTREKVPEEYFKHDPEHKFIYRFVRTLFSAAQLTAECAIVTL
IRESfinder result
IRESfinder score
0.623320165
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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