top of page
mmu_circLyst_1254
Basic information of circular RNA
PanCircBase ID:
mmu_circLyst_1254
mm39_Chr. Position ID:
chr13|13915049|13935786|+
Gene name:
Lyst
Transcript:
ENSMUST00000110559.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
43,44,45,46,47,48,49,50
Exon/intron offsets:
0,2775,6107,11478,16846,18913,20241,20639
Genomic length:
20737
Exon/intron sizes in nt:
141,218,231,190,137,99,140,98
Flanking exon/introns:
chr13:13905066-13915049|chr13:13935786-13950054
Splice length:
1254
Other database IDs:
circAtlas: mmu-Lyst_0009
circAtlas: hsa-LYST_0021
Human Ortholog IDs:
Mature spliced Sequence:
ATCAGAGTTTCGACATTCCAGACCGAACATTTCATTCTACAAACACAACTTGGCGCCTCTCCTCCTTTGAGTCCATGACTGATGTGAAGGAGCTGATTCCAGAGTTTTTCTATCTTCCTGAGTTCTTAGTGAACCGTGAAGGCTTTGACTTCGGTGTTCGTCAGAATGGAGAGCGGGTTAACCACGTCAATCTTCCTCCCTGGGCACGCAACGATCCTCGGCTGTTCATCCTTATTCACCGGCAAGCACTAGAGTCTGACCATGTGTCCCAGAACATCTGTCACTGGATCGACTTAGTGTTTGGCTACAAGCAAAAGGGGAAGGCGTCTGTTCAAGCCATCAATGTCTTCCACCCTGCTACATATTTTGGAATGGATGTCTCTGCAGTTGAAGATCCAGTGCAGAGACGGGCTTTAGAAACCATGATAAAAACCTACGGGCAGACCCCACGTCAGTTGTTCCACACAGCCCATGCCAGCCGACCTGGAGCCAAGCTTAACATCGAAGGAGAGCTTCCAGCAGCTGTTGGCTTGTTAGTCCAGTTCGCTTTCAGAGAGACCCGAGAACCAGTCAAGGAAGTCACTCATCCGAGCCCTTTGTCATGGATAAAAGGCTTGAAGTGGGGGGAGTACGTAGGTTCCCCCAGTGCTCCAGTACCTGTGGTCTGCTTCAGCCAGCCCCATGGAGAAAGATTTGGTTCCCTGCAGGCACTGCCCACCAGAGCCATCTGTGGTTTATCACGAAACTTCTGTCTTCTGATGACCTACAACAAGGAGCAAGGTGTGAGAAGCATGAACAACACCAATATTCAGTGGTCTGCTATCCTAAGCTGGGGATATGCTGACAACATCTTACGGTTGAAAAGTAAGCAGAGTGAGCCACCAATCAACTTCATTCAGAGTTCACAGCAGCACCAGGTAACCAGTTGTGCCTGGGTGCCTGACAGTTGTCAGCTCTTCACTGGGAGCAAGTGTGGTGTCATCACAGCCTATACCAACAGGCTCACCAGCAGCACGCCCTCAGAAATTGAAATGGAGAGTCAGATGCATCTCTATGGACACACAGAGGAGATCACCGGCTTATGTGTCTGCAAGCCGTACAGCGTGATGATAAGCGTGAGCAGAGACGGGACCTGCATAGTATGGGACCTGAACAGGCTGTGCTATGTACAAAGTTTGGCTGGACACAAAAGCCCTGTGACGGCTGTCTCTGCCAGTGAAACGTCAGGTGACATTGCTACTGTGTGTGACTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGACACAAAAGCCCTGTGA
59.74
GACTCAAAGGAGGAGAGGCG
59.83
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACACAAAAGCCCTGTGACG
59.69
GACTCAAAGGAGGAGAGGCG
59.83
145
PCR template sequence:
AGGCTGTGCTATGTACAAAGTTTGGCTGGACACAAAAGCCCTGTGACGGCTGTCTCTGCCAGTGAAACGTCAGGTGACATTGCTACTGTGTGTGACTCAGATCAGAGTTTCGACATTCCAGACCGAACATTTCATTCTACAAACACAACTTGGCGCCTCTCCTCCTTTGAGTCCATGACTGATGTGAAGGAGCTGATTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-206-3p(1), mmu-miR-34a-5p(1), mmu-miR-7a-5p(1), mmu-miR-203-3p(1), mmu-miR-136-5p(1), mmu-miR-382-5p(1), mmu-miR-425-5p(1), mmu-miR-377-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGTGTGACTCAGATCAGAGTTTCGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLYST_1254_ORF_1
0.8375
0.207582777
0.999999571
2433
ORF sequence:
ATGACTGATGTGAAGGAGCTGATTCCAGAGTTTTTCTATCTTCCTGAGTTCTTAGTGAACCGTGAAGGCTTTGACTTCGGTGTTCGTCAGAATGGAGAGCGGGTTAACCACGTCAATCTTCCTCCCTGGGCACGCAACGATCCTCGGCTGTTCATCCTTATTCACCGGCAAGCACTAGAGTCTGACCATGTGTCCCAGAACATCTGTCACTGGATCGACTTAGTGTTTGGCTACAAGCAAAAGGGGAAGGCGTCTGTTCAAGCCATCAATGTCTTCCACCCTGCTACATATTTTGGAATGGATGTCTCTGCAGTTGAAGATCCAGTGCAGAGACGGGCTTTAGAAACCATGATAAAAACCTACGGGCAGACCCCACGTCAGTTGTTCCACACAGCCCATGCCAGCCGACCTGGAGCCAAGCTTAACATCGAAGGAGAGCTTCCAGCAGCTGTTGGCTTGTTAGTCCAGTTCGCTTTCAGAGAGACCCGAGAACCAGTCAAGGAAGTCACTCATCCGAGCCCTTTGTCATGGATAAAAGGCTTGAAGTGGGGGGAGTACGTAGGTTCCCCCAGTGCTCCAGTACCTGTGGTCTGCTTCAGCCAGCCCCATGGAGAAAGATTTGGTTCCCTGCAGGCACTGCCCACCAGAGCCATCTGTGGTTTATCACGAAACTTCTGTCTTCTGATGACCTACAACAAGGAGCAAGGTGTGAGAAGCATGAACAACACCAATATTCAGTGGTCTGCTATCCTAAGCTGGGGATATGCTGACAACATCTTACGGTTGAAAAGTAAGCAGAGTGAGCCACCAATCAACTTCATTCAGAGTTCACAGCAGCACCAGGTAACCAGTTGTGCCTGGGTGCCTGACAGTTGTCAGCTCTTCACTGGGAGCAAGTGTGGTGTCATCACAGCCTATACCAACAGGCTCACCAGCAGCACGCCCTCAGAAATTGAAATGGAGAGTCAGATGCATCTCTATGGACACACAGAGGAGATCACCGGCTTATGTGTCTGCAAGCCGTACAGCGTGATGATAAGCGTGAGCAGAGACGGGACCTGCATAGTATGGGACCTGAACAGGCTGTGCTATGTACAAAGTTTGGCTGGACACAAAAGCCCTGTGACGGCTGTCTCTGCCAGTGAAACGTCAGGTGACATTGCTACTGTGTGTGACTCAGATCAGAGTTTCGACATTCCAGACCGAACATTTCATTCTACAAACACAACTTGGCGCCTCTCCTCCTTTGAGTCCATGACTGATGTGAAGGAGCTGATTCCAGAGTTTTTCTATCTTCCTGAGTTCTTAGTGAACCGTGAAGGCTTTGACTTCGGTGTTCGTCAGAATGGAGAGCGGGTTAACCACGTCAATCTTCCTCCCTGGGCACGCAACGATCCTCGGCTGTTCATCCTTATTCACCGGCAAGCACTAGAGTCTGACCATGTGTCCCAGAACATCTGTCACTGGATCGACTTAGTGTTTGGCTACAAGCAAAAGGGGAAGGCGTCTGTTCAAGCCATCAATGTCTTCCACCCTGCTACATATTTTGGAATGGATGTCTCTGCAGTTGAAGATCCAGTGCAGAGACGGGCTTTAGAAACCATGATAAAAACCTACGGGCAGACCCCACGTCAGTTGTTCCACACAGCCCATGCCAGCCGACCTGGAGCCAAGCTTAACATCGAAGGAGAGCTTCCAGCAGCTGTTGGCTTGTTAGTCCAGTTCGCTTTCAGAGAGACCCGAGAACCAGTCAAGGAAGTCACTCATCCGAGCCCTTTGTCATGGATAAAAGGCTTGAAGTGGGGGGAGTACGTAGGTTCCCCCAGTGCTCCAGTACCTGTGGTCTGCTTCAGCCAGCCCCATGGAGAAAGATTTGGTTCCCTGCAGGCACTGCCCACCAGAGCCATCTGTGGTTTATCACGAAACTTCTGTCTTCTGATGACCTACAACAAGGAGCAAGGTGTGAGAAGCATGAACAACACCAATATTCAGTGGTCTGCTATCCTAAGCTGGGGATATGCTGACAACATCTTACGGTTGAAAAGTAAGCAGAGTGAGCCACCAATCAACTTCATTCAGAGTTCACAGCAGCACCAGGTAACCAGTTGTGCCTGGGTGCCTGACAGTTGTCAGCTCTTCACTGGGAGCAAGTGTGGTGTCATCACAGCCTATACCAACAGGCTCACCAGCAGCACGCCCTCAGAAATTGAAATGGAGAGTCAGATGCATCTCTATGGACACACAGAGGAGATCACCGGCTTATGTGTCTGCAAGCCGTACAGCGTGATGATAAGCGTGAGCAGAGACGGGACCTGCATAGTATGGGACCTGAACAGGCTGTGCTATGTACAAAGTTTGGCTGGACACAAAAGCCCTGTGACGGCTGTCTCTGCCAGTGAAACGTCAGGTGACATTGCTACTGTGTGTGACTCA
Peptide sequence:
MTDVKELIPEFFYLPEFLVNREGFDFGVRQNGERVNHVNLPPWARNDPRLFILIHRQALESDHVSQNICHWIDLVFGYKQKGKASVQAINVFHPATYFGMDVSAVEDPVQRRALETMIKTYGQTPRQLFHTAHASRPGAKLNIEGELPAAVGLLVQFAFRETREPVKEVTHPSPLSWIKGLKWGEYVGSPSAPVPVVCFSQPHGERFGSLQALPTRAICGLSRNFCLLMTYNKEQGVRSMNNTNIQWSAILSWGYADNILRLKSKQSEPPINFIQSSQQHQVTSCAWVPDSCQLFTGSKCGVITAYTNRLTSSTPSEIEMESQMHLYGHTEEITGLCVCKPYSVMISVSRDGTCIVWDLNRLCYVQSLAGHKSPVTAVSASETSGDIATVCDSDQSFDIPDRTFHSTNTTWRLSSFESMTDVKELIPEFFYLPEFLVNREGFDFGVRQNGERVNHVNLPPWARNDPRLFILIHRQALESDHVSQNICHWIDLVFGYKQKGKASVQAINVFHPATYFGMDVSAVEDPVQRRALETMIKTYGQTPRQLFHTAHASRPGAKLNIEGELPAAVGLLVQFAFRETREPVKEVTHPSPLSWIKGLKWGEYVGSPSAPVPVVCFSQPHGERFGSLQALPTRAICGLSRNFCLLMTYNKEQGVRSMNNTNIQWSAILSWGYADNILRLKSKQSEPPINFIQSSQQHQVTSCAWVPDSCQLFTGSKCGVITAYTNRLTSSTPSEIEMESQMHLYGHTEEITGLCVCKPYSVMISVSRDGTCIVWDLNRLCYVQSLAGHKSPVTAVSASETSGDIATVCDS
IRESfinder result
IRESfinder score
0.601069404
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page