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mmu_circYme1l1_618
Basic information of circular RNA
PanCircBase ID:
mmu_circYme1l1_618
mm39_Chr. Position ID:
chr2|23054510|23073315|+
Gene name:
Yme1l1
Transcript:
ENSMUST00000028117.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
4,5,6,7,8,9
Exon/intron offsets:
0,3786,8457,10670,16527,18714
Genomic length:
18805
Exon/intron sizes in nt:
99,110,151,84,83,91
Flanking exon/introns:
chr2:23052675-23054510|chr2:23073315-23076189
Splice length:
618
Other database IDs:
circAtlas: mmu-Yme1l1_0012
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_167205
Human Ortholog IDs:
Mature spliced Sequence:
GTCACTTAGATATGTTCAGTACATTACGTTCCTCTAGCTTGTACAGGCAACATCCAAAAACTCTTCGAAGCATTTGTTCAGATCTTCAGTATTTTCCAGTTTTCATACAGTCTCGGGGTTTCAAAACGTTGAAATCAAGGACACGACGTTTGCAGTCTACCTCTGAAAGATTAGTAGAAGCACAGAATATAGCACCATCATTTGTGAAGGGGTTTCTTTTGCGGGACAGAGGAACAGATCTTGAGAGTTTGGACAAACTTATGAAAACTAAAAACATACCTGAAGCTCACCAAGATGCATTTAAAACTGGTTTTGCAGAGGGTTTTCTCAAAGCTCAAGCTCTTACACAGAAGACCAATGATTCCTTAAGGCGAACTCGTCTGATCCTCTTTGTTTTGCTCCTGTTTGGCATTTATGGACTCTTAAAAAATCCGTTTTTATCTGTGCGCTTTCGGACAACTACAGGACTTGATTCTGCGGTAGACCCTGTCCAGATGAAAAATGTCACTTTTGAACATGTTAAAGGGGTGGAGGAAGCCAAACAAGAGTTACAGGAAGTGGTTGAATTCTTGAAAAATCCACAGAAGTTTACTGTGCTTGGAGGTAAACTTCCCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTGGAGGAAGCCAAACAA
60.47
TGGATGTTGCCTGTACAAGCT
59.93
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAAAGGGGTGGAGGAAGCCA
60.48
TGGATGTTGCCTGTACAAGCT
59.93
154
PCR template sequence:
GTTAAAGGGGTGGAGGAAGCCAAACAAGAGTTACAGGAAGTGGTTGAATTCTTGAAAAATCCACAGAAGTTTACTGTGCTTGGAGGTAAACTTCCCAAAGGTCACTTAGATATGTTCAGTACATTACGTTCCTCTAGCTTGTACAGGCAACATCCAAAAACTCTTCGAAGCATTTGTTCAGATCTTCAGTATTTTCCAGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-218-5p(1), mmu-miR-5101(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAACTTCCCAAAGGTCACTTAGATAT
siRNA sets
ATATCTAAGTGACCTTTGG, TAAGTGACCTTTGGGAAGT, CTAAGTGACCTTTGGGAAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCYME1L1_618_ORF_1
0.8266
-0.029651911
0.993150638
1224
ORF sequence:
ATGTTCAGTACATTACGTTCCTCTAGCTTGTACAGGCAACATCCAAAAACTCTTCGAAGCATTTGTTCAGATCTTCAGTATTTTCCAGTTTTCATACAGTCTCGGGGTTTCAAAACGTTGAAATCAAGGACACGACGTTTGCAGTCTACCTCTGAAAGATTAGTAGAAGCACAGAATATAGCACCATCATTTGTGAAGGGGTTTCTTTTGCGGGACAGAGGAACAGATCTTGAGAGTTTGGACAAACTTATGAAAACTAAAAACATACCTGAAGCTCACCAAGATGCATTTAAAACTGGTTTTGCAGAGGGTTTTCTCAAAGCTCAAGCTCTTACACAGAAGACCAATGATTCCTTAAGGCGAACTCGTCTGATCCTCTTTGTTTTGCTCCTGTTTGGCATTTATGGACTCTTAAAAAATCCGTTTTTATCTGTGCGCTTTCGGACAACTACAGGACTTGATTCTGCGGTAGACCCTGTCCAGATGAAAAATGTCACTTTTGAACATGTTAAAGGGGTGGAGGAAGCCAAACAAGAGTTACAGGAAGTGGTTGAATTCTTGAAAAATCCACAGAAGTTTACTGTGCTTGGAGGTAAACTTCCCAAAGGTCACTTAGATATGTTCAGTACATTACGTTCCTCTAGCTTGTACAGGCAACATCCAAAAACTCTTCGAAGCATTTGTTCAGATCTTCAGTATTTTCCAGTTTTCATACAGTCTCGGGGTTTCAAAACGTTGAAATCAAGGACACGACGTTTGCAGTCTACCTCTGAAAGATTAGTAGAAGCACAGAATATAGCACCATCATTTGTGAAGGGGTTTCTTTTGCGGGACAGAGGAACAGATCTTGAGAGTTTGGACAAACTTATGAAAACTAAAAACATACCTGAAGCTCACCAAGATGCATTTAAAACTGGTTTTGCAGAGGGTTTTCTCAAAGCTCAAGCTCTTACACAGAAGACCAATGATTCCTTAAGGCGAACTCGTCTGATCCTCTTTGTTTTGCTCCTGTTTGGCATTTATGGACTCTTAAAAAATCCGTTTTTATCTGTGCGCTTTCGGACAACTACAGGACTTGATTCTGCGGTAGACCCTGTCCAGATGAAAAATGTCACTTTTGAACATGTTAAAGGGGTGGAGGAAGCCAAACAAGAGTTACAGGAAGTGGTTGAATTCTTGAAAAATCCACAGAAGTTTACTGTGCTTGGAGGTAAACTTCCCAAA
Peptide sequence:
MFSTLRSSSLYRQHPKTLRSICSDLQYFPVFIQSRGFKTLKSRTRRLQSTSERLVEAQNIAPSFVKGFLLRDRGTDLESLDKLMKTKNIPEAHQDAFKTGFAEGFLKAQALTQKTNDSLRRTRLILFVLLLFGIYGLLKNPFLSVRFRTTTGLDSAVDPVQMKNVTFEHVKGVEEAKQELQEVVEFLKNPQKFTVLGGKLPKGHLDMFSTLRSSSLYRQHPKTLRSICSDLQYFPVFIQSRGFKTLKSRTRRLQSTSERLVEAQNIAPSFVKGFLLRDRGTDLESLDKLMKTKNIPEAHQDAFKTGFAEGFLKAQALTQKTNDSLRRTRLILFVLLLFGIYGLLKNPFLSVRFRTTTGLDSAVDPVQMKNVTFEHVKGVEEAKQELQEVVEFLKNPQKFTVLGGKLPK
IRESfinder result
IRESfinder score
0.801151773
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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