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mmu_circMed14_937
Basic information of circular RNA
PanCircBase ID:
mmu_circMed14_937
mm39_Chr. Position ID:
chrX|12610955|12615576|-
Gene name:
Med14
Transcript:
ENSMUST00000096495.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
10,9,8,7,6,5,4
Exon/intron offsets:
0,1029,1908,2752,3132,3702,4447
Genomic length:
4621
Exon/intron sizes in nt:
112,151,133,108,129,130,174
Flanking exon/introns:
chrX:12594378-12610955|chrX:12615576-12620345
Splice length:
937
Other database IDs:
circAtlas: mmu-Med14_0001
circAtlas: hsa-MED14_0001
Human Ortholog IDs:
Mature spliced Sequence:
ATGATCTCAAGCTTTTTAGATCAGCAAGCTATCTTATTTGTGGATACCGCTGACCGCTTGGCCTCCTTAGCTAGAGATGCCCTGGTCCATGCACGCCTGCCTAGTTTTGCTATTCCATATGCCATTGATGTACTGACTACTGGCTCTTATCCACGGCTTCCAACCTGCATCAGGGACAAAATTATTCCTCCAGACCCAATTACCAAAATTGAGAAACAAGCCACACTTCATCAGCTTAATCAGATTCTTAGACATAGGCTTGTAACGACAGATCTTCCTCCACAGCTAGCAAATCTTACAGTGGCAAATGGCCGTGTGAAGTTTCGAGTTGAAGGAGAATTTGAAGCAACCTTGACAGTGATGGGTGATGACCCAGAAGTCCCGTGGCGTCTTCTCAAGCTAGAAATTCTAGTTGAGGATAAGGAAACAGGAGATGGGCGAGCTTTGGTTCATAGCATGCAAATCGATTTTATCCATCAGCTGGTCCAGTCTAGGCTCTTTGCTGATGAGAAACCTCTTCAGGACATGTACAACTGCCTACATTGTTTCTGCTTATCGCTTCAACTAGAAGTATTACATTCCCAGACACTAATGTTAATCCGAGAGAGGTGGGGAGACCTTGTACAGGTGGAAAGATACCATGCTGGAAAGAGCCTCTCCCTCTCAGTTTGGAATCAACAGGTTCTAGGGAGAAAAACAGGCACAGCATCTGTTCACAAAGTTACAATTAAAATCGATGAGAATGATGTCTCCAAGCCTTTACAGATTTTTCATGATCCTCCTTTGCCAGCTTCTGATTCTAAATTAGTAGAAAGAGCCATGAAGATTGACCACTTATCAATAGAAAAGCTCCTGATTGACAGTGTACACGCAAGAGCCCACCAGAGGCTGCAGGAACTGAAGGCCATTCTTAGAAGCTTCAACGCCAATGAAAGCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGTGTACACGCAAGAGCC
60.6
CTAGCTAAGGAGGCCAAGCG
60.25
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACAGTGTACACGCAAGAGC
59.22
CTAGCTAAGGAGGCCAAGCG
60.25
153
PCR template sequence:
TCAATAGAAAAGCTCCTGATTGACAGTGTACACGCAAGAGCCCACCAGAGGCTGCAGGAACTGAAGGCCATTCTTAGAAGCTTCAACGCCAATGAAAGCTATGATCTCAAGCTTTTTAGATCAGCAAGCTATCTTATTTGTGGATACCGCTGACCGCTTGGCCTCCTTAGCTAGAGATGCCCTGGTCCATGCACGCCTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-384-3p(1), mmu-miR-669d-5p(1), mmu-miR-670-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCCAATGAAAGCTATGATCTCAAGCT
siRNA sets
GATCATAGCTTTCATTGGC, AGATCATAGCTTTCATTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMED14_937_ORF_1
0.9663
0.071968039
0.981080801
990
ORF sequence:
ATGATCTCAAGCTTTTTAGATCAGCAAGCTATCTTATTTGTGGATACCGCTGACCGCTTGGCCTCCTTAGCTAGAGATGCCCTGGTCCATGCACGCCTGCCTAGTTTTGCTATTCCATATGCCATTGATGTACTGACTACTGGCTCTTATCCACGGCTTCCAACCTGCATCAGGGACAAAATTATTCCTCCAGACCCAATTACCAAAATTGAGAAACAAGCCACACTTCATCAGCTTAATCAGATTCTTAGACATAGGCTTGTAACGACAGATCTTCCTCCACAGCTAGCAAATCTTACAGTGGCAAATGGCCGTGTGAAGTTTCGAGTTGAAGGAGAATTTGAAGCAACCTTGACAGTGATGGGTGATGACCCAGAAGTCCCGTGGCGTCTTCTCAAGCTAGAAATTCTAGTTGAGGATAAGGAAACAGGAGATGGGCGAGCTTTGGTTCATAGCATGCAAATCGATTTTATCCATCAGCTGGTCCAGTCTAGGCTCTTTGCTGATGAGAAACCTCTTCAGGACATGTACAACTGCCTACATTGTTTCTGCTTATCGCTTCAACTAGAAGTATTACATTCCCAGACACTAATGTTAATCCGAGAGAGGTGGGGAGACCTTGTACAGGTGGAAAGATACCATGCTGGAAAGAGCCTCTCCCTCTCAGTTTGGAATCAACAGGTTCTAGGGAGAAAAACAGGCACAGCATCTGTTCACAAAGTTACAATTAAAATCGATGAGAATGATGTCTCCAAGCCTTTACAGATTTTTCATGATCCTCCTTTGCCAGCTTCTGATTCTAAATTAGTAGAAAGAGCCATGAAGATTGACCACTTATCAATAGAAAAGCTCCTGATTGACAGTGTACACGCAAGAGCCCACCAGAGGCTGCAGGAACTGAAGGCCATTCTTAGAAGCTTCAACGCCAATGAAAGCTATGATCTCAAGCTTTTTAGATCAGCAAGCTATCTTATTTGTGGATACCGCTGA
Peptide sequence:
MISSFLDQQAILFVDTADRLASLARDALVHARLPSFAIPYAIDVLTTGSYPRLPTCIRDKIIPPDPITKIEKQATLHQLNQILRHRLVTTDLPPQLANLTVANGRVKFRVEGEFEATLTVMGDDPEVPWRLLKLEILVEDKETGDGRALVHSMQIDFIHQLVQSRLFADEKPLQDMYNCLHCFCLSLQLEVLHSQTLMLIRERWGDLVQVERYHAGKSLSLSVWNQQVLGRKTGTASVHKVTIKIDENDVSKPLQIFHDPPLPASDSKLVERAMKIDHLSIEKLLIDSVHARAHQRLQELKAILRSFNANESYDLKLFRSASYLICGYR
IRESfinder result
IRESfinder score
0.587603352
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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