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mmu_circPsme4_808
Basic information of circular RNA
PanCircBase ID:
mmu_circPsme4_808
mm39_Chr. Position ID:
chr11|30741091|30759928|+
Gene name:
Psme4
Transcript:
ENSMUST00000041231.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
2,3,4,5,6,7,8,9
Exon/intron offsets:
0,830,11722,13198,13871,15163,16611,18744
Genomic length:
18837
Exon/intron sizes in nt:
141,117,45,150,64,75,123,93
Flanking exon/introns:
chr11:30722224-30741091|chr11:30759928-30760782
Splice length:
808
Other database IDs:
circAtlas: mmu-Psme4_0031
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
TTATATCCGACTTTATGGGAGAAAATTTAGCAAAGAAGATCATGTTCTTTTTATTAAGTTACTGTATGAGCTGGTATCAATTCCAAAACTAGAAATCAGCATGATGCAGGGATTTGCCCGTCTCTTGATCAACTTGTTAAAAAAAAAGGAACTTCTTTCAAGAGATGATTTAGAGTTACCTTGGAGACCACTTTATGACTTGGTAGAAAGAATATTATATTCCAAGACAGAGCACCTGAGATTAAATTCATTTCCTAATTCTATAGAAAATGTTCTCAAAACACTGGTGAAAAGCTGCCGACCATACTTTCCAGCAGATTCAACAGCAGAAATGTTAGAAGAATGGCGGCCTTTAATGTGTCCTTTTGATGTAACAATGCAAAAGGCCATCAGTTATTTTGAAATATTTCTTCCTACCTCCCTTCCTCCAGAACTGCATCATAAAGGTTTTAAACTTTGGTTTGATGAATTAATTGGCCTTTGGGTTTCAGTGCAAAATCTCCCACAGTGGGAGGGGCAATTAGTAAATCTCTTTGCTCGATTGGCTACAGATAATATAGGATACATAGATTGGGATCCATATGTACCGAAGATATTTACAAGAATTCTGAGAAGCCTGAACCTCCCAGTGGGAAGCAGTCAAGTTTTAGTCCCAAGATTTTTAACAAATGCTTATGATATAGGACATGCTGTAATATGGATCACCGCAATGATGGGTGGACCAAGTAAATTAGTACAAAAACATTTAGCTGGTTTGTTTAACAGCATCACATCATTTTATCATCCTTCAAATAATGGGCGTTGGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTGGTTTGTTTAACAGCATCA
59.36
TGGAATTGATACCAGCTCATACAGT
59.87
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGGTTTGTTTAACAGCATCAC
59.26
TGGAATTGATACCAGCTCATACAGT
59.87
145
PCR template sequence:
AATGATGGGTGGACCAAGTAAATTAGTACAAAAACATTTAGCTGGTTTGTTTAACAGCATCACATCATTTTATCATCCTTCAAATAATGGGCGTTGGCTGTTATATCCGACTTTATGGGAGAAAATTTAGCAAAGAAGATCATGTTCTTTTTATTAAGTTACTGTATGAGCTGGTATCAATTCCAAAACTAGAAATCAGC
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-let-7a-5p(1), mmu-miR-199a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-135a-5p(1), mmu-let-7c-5p(1), mmu-miR-33-5p(1), mmu-miR-216a-5p(1), mmu-miR-101b-3p(1), mmu-let-7d-5p(1), mmu-miR-98-5p(1), mmu-miR-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGGCGTTGGCTGTTATATCCGACTT
siRNA sets
ATATAACAGCCAACGCCCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPSME4_808_ORF_1
0.6649
-0.158306057
0.775591974
822
ORF sequence:
ATGGGCGTTGGCTGTTATATCCGACTTTATGGGAGAAAATTTAGCAAAGAAGATCATGTTCTTTTTATTAAGTTACTGTATGAGCTGGTATCAATTCCAAAACTAGAAATCAGCATGATGCAGGGATTTGCCCGTCTCTTGATCAACTTGTTAAAAAAAAAGGAACTTCTTTCAAGAGATGATTTAGAGTTACCTTGGAGACCACTTTATGACTTGGTAGAAAGAATATTATATTCCAAGACAGAGCACCTGAGATTAAATTCATTTCCTAATTCTATAGAAAATGTTCTCAAAACACTGGTGAAAAGCTGCCGACCATACTTTCCAGCAGATTCAACAGCAGAAATGTTAGAAGAATGGCGGCCTTTAATGTGTCCTTTTGATGTAACAATGCAAAAGGCCATCAGTTATTTTGAAATATTTCTTCCTACCTCCCTTCCTCCAGAACTGCATCATAAAGGTTTTAAACTTTGGTTTGATGAATTAATTGGCCTTTGGGTTTCAGTGCAAAATCTCCCACAGTGGGAGGGGCAATTAGTAAATCTCTTTGCTCGATTGGCTACAGATAATATAGGATACATAGATTGGGATCCATATGTACCGAAGATATTTACAAGAATTCTGAGAAGCCTGAACCTCCCAGTGGGAAGCAGTCAAGTTTTAGTCCCAAGATTTTTAACAAATGCTTATGATATAGGACATGCTGTAATATGGATCACCGCAATGATGGGTGGACCAAGTAAATTAGTACAAAAACATTTAGCTGGTTTGTTTAACAGCATCACATCATTTTATCATCCTTCAAATAATGGGCGTTGGCTG
Peptide sequence:
MGVGCYIRLYGRKFSKEDHVLFIKLLYELVSIPKLEISMMQGFARLLINLLKKKELLSRDDLELPWRPLYDLVERILYSKTEHLRLNSFPNSIENVLKTLVKSCRPYFPADSTAEMLEEWRPLMCPFDVTMQKAISYFEIFLPTSLPPELHHKGFKLWFDELIGLWVSVQNLPQWEGQLVNLFARLATDNIGYIDWDPYVPKIFTRILRSLNLPVGSSQVLVPRFLTNAYDIGHAVIWITAMMGGPSKLVQKHLAGLFNSITSFYHPSNNGRWL
IRESfinder result
IRESfinder score
0.852787972
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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