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mmu_circMap2k4_295
Basic information of circular RNA
PanCircBase ID:
mmu_circMap2k4_295
mm39_Chr. Position ID:
chr11|65610309|65626192|-
Gene name:
Map2k4
Transcript:
ENSMUST00000046963.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,3
Exon/intron offsets:
0,15708
Genomic length:
15883
Exon/intron sizes in nt:
1,20,175
Flanking exon/introns:
chr11:65603123-65610309|chr11:65626192-65647094
Splice length:
295
Other database IDs:
CIRCpedia: MMU_CIRCpedia_212401
circBase: hsa_circ_0008996, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_19263
Human Ortholog IDs:
Mature spliced Sequence:
AGAGAGACTGAGAACACACAGCATTGAGTCATCAGGAAAACTGAAGATCTCCCCTGAACAACACTGGGATTTCACTGCAGAGGACTTGAAAGACCTTGGAGAAATTGGACGAGGAGCTTATGGTTCTGTCAACAAAATGGTCCACAAACCAAGTGGGCAGATAATGGCAGTTAAAAGAATTCGGTCAACTGTGGATGAAAAAGAACAAAAACAACTTCTCATGGATTTGGATGTAGTAATGCGGAGTAGTGATTGCCCATACATTGTTCAGTTCTATGGTGCACTCTTCAGAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCGGAGTAGTGATTGCCCAT
60.18
GTCCTCTGCAGTGAAATCCCA
60
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGCGGAGTAGTGATTGCCC
60.18
GTCCTCTGCAGTGAAATCCCA
60
142
PCR template sequence:
TGAAAAAGAACAAAAACAACTTCTCATGGATTTGGATGTAGTAATGCGGAGTAGTGATTGCCCATACATTGTTCAGTTCTATGGTGCACTCTTCAGAGAGAGAGAGACTGAGAACACACAGCATTGAGTCATCAGGAAAACTGAAGATCTCCCCTGAACAACACTGGGATTTCACTGCAGAGGACTTGAAAGACCTTGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-382-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTCTTCAGAGAGAGAGAGACTGAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMAP2K4_295_ORF_1
0.7793
0.120794806
0.2610175
315
ORF sequence:
ATGGTGCACTCTTCAGAGAGAGAGAGACTGAGAACACACAGCATTGAGTCATCAGGAAAACTGAAGATCTCCCCTGAACAACACTGGGATTTCACTGCAGAGGACTTGAAAGACCTTGGAGAAATTGGACGAGGAGCTTATGGTTCTGTCAACAAAATGGTCCACAAACCAAGTGGGCAGATAATGGCAGTTAAAAGAATTCGGTCAACTGTGGATGAAAAAGAACAAAAACAACTTCTCATGGATTTGGATGTAGTAATGCGGAGTAGTGATTGCCCATACATTGTTCAGTTCTATGGTGCACTCTTCAGAGAG
Peptide sequence:
MVHSSERERLRTHSIESSGKLKISPEQHWDFTAEDLKDLGEIGRGAYGSVNKMVHKPSGQIMAVKRIRSTVDEKEQKQLLMDLDVVMRSSDCPYIVQFYGALFRE
IRESfinder result
IRESfinder score
0.661291639
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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