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mmu_circMap3k3_263
Basic information of circular RNA
PanCircBase ID:
mmu_circMap3k3_263
mm39_Chr. Position ID:
chr11|105987816|106005109|+
Gene name:
Map3k3
Transcript:
ENSMUST00000002044.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,13753,17193
Genomic length:
17293
Exon/intron sizes in nt:
122,41,100
Flanking exon/introns:
chr11:105975759-105987816|chr11:106005109-106008315
Splice length:
263
Other database IDs:
CIRCpedia: MMU_CIRCpedia_1683, circAtlas: mmu-Map3k3_0006
circBase: hsa_circ_0107404, circAtlas: hsa-MAP3K3_0006
Human Ortholog IDs:
Mature spliced Sequence:
ATGAACAAGAGGCATTAGACTCGATCATGAAGGACCTGGTGGCCCTCCAGATGAGCCGACGAACCCGGTTGTCTGGATATGAGACCATGAAGAATAAGGACACAGGTCACCCAAACAGGCAGAGTGACGTCAGAATCAAGTTTGAACACAATGGGGAGAGACGAATTATAGCATTCAGCCGGCCTGTGAGATACGAAGATGTGGAGCACAAGGTGACAACAGTCTTTGGGCAGCCTCTTGATTTGCATTATATGAATAATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGGCCTGTGAGATACGAAG
60.25
GTTCGTCGGCTCATCTGGAG
60.53
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCGGCCTGTGAGATACGAAG
60.25
TATCCAGACAACCGGGTTCG
59.47
164
PCR template sequence:
AATTATAGCATTCAGCCGGCCTGTGAGATACGAAGATGTGGAGCACAAGGTGACAACAGTCTTTGGGCAGCCTCTTGATTTGCATTATATGAATAATGAGATGAACAAGAGGCATTAGACTCGATCATGAAGGACCTGGTGGCCCTCCAGATGAGCCGACGAACCCGGTTGTCTGGATATGAGACCATGAAGAATAAGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-433-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TATGAATAATGAGATGAACAAGAGGC
siRNA sets
CTTGTTCATCTCATTATTC, TTGTTCATCTCATTATTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMAP3K3_263_ORF_1
1.212
0.31324038
0.529802364
255
ORF sequence:
ATGAAGGACCTGGTGGCCCTCCAGATGAGCCGACGAACCCGGTTGTCTGGATATGAGACCATGAAGAATAAGGACACAGGTCACCCAAACAGGCAGAGTGACGTCAGAATCAAGTTTGAACACAATGGGGAGAGACGAATTATAGCATTCAGCCGGCCTGTGAGATACGAAGATGTGGAGCACAAGGTGACAACAGTCTTTGGGCAGCCTCTTGATTTGCATTATATGAATAATGAGATGAACAAGAGGCATTAG
Peptide sequence:
MKDLVALQMSRRTRLSGYETMKNKDTGHPNRQSDVRIKFEHNGERRIIAFSRPVRYEDVEHKVTTVFGQPLDLHYMNNEMNKRH
IRESfinder result
IRESfinder score
0.44083829
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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