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mmu_ciMap4k4_702
Basic information of circular RNA
PanCircBase ID:
mmu_ciMap4k4_702
mm39_Chr. Position ID:
chr1|40046690|40047392|+
Gene name:
Map4k4
Transcript:
ENSMUST00000168431.7
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
19
Exon/intron offsets:
0
Genomic length:
702
Exon/intron sizes in nt:
702
Flanking exon/introns:
chr1:40046690-40048847
Splice length:
702
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTACTGTGTAAAATCACTTAGTTCTGTGTCAAGCTGGAGGGAAACCTTTGTGTTAAGAATATTGTTGAAGGGCTGGGGTATGCAGTTGCATGTGGGAGGTCCCAAGCTCAGTCTCCAGCGAAAAGAAAGGAAAAGTGATGGAGAGGCCTGCAGTGGTTTGATTTTTGTGTGGCCCTTCCCTGCTGTGGGGAAATAGAAGAGTTGTCTGATGCAGGATGCCGTTGTGGGTTCGCCCTTAGGCATCTCAATTCTGAAGTCATTAGCAGGGCAGTTCTGTTCCACTTCAGCCTTCCACTAGTTGTCCAATTAGCCGTACAGAGAAGCACAGAATAAAATATAATTTTATGTATTGGCAGTTTTTAAGGAAATGAGTATTTTATAGTAATACTGAGTAAAATTCAAAAGCTCCAACACACGCACACGCACACACGCACGCACACACACCCATACCCGTGCACGATGCACAATCATTGCTTGTCATCGACCTTATTCTTGGTAAGTTTGGTGTTTGCAGTACTGGCTTTCAGAATAAGTGTGAATGAGCGCTCCTGTGTCTTGAGTGCTGCCCTTGGTCTCTGGGCTGATGACTTTGACTGCTTCCTCGATCCTTATCATGGCAGTCAGTCATGTGACTGTGGGTACTTGTGGGGTTTTAAGCCTATTGAAGTTTTAGGTTCCTCTTTAACTGATTTCTGGAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACTGTGGGTACTTGTGGGG
59.96
CATACCCCAGCCCTTCAACA
59.67
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGTGGGTACTTGTGGGGTT
59.52
CATACCCCAGCCCTTCAACA
59.67
152
PCR template sequence:
TCCTCGATCCTTATCATGGCAGTCAGTCATGTGACTGTGGGTACTTGTGGGGTTTTAAGCCTATTGAAGTTTTAGGTTCCTCTTTAACTGATTTCTGGATGTAAGTACTGTGTAAAATCACTTAGTTCTGTGTCAAGCTGGAGGGAAACCTTTGTGTTAAGAATATTGTTGAAGGGCTGGGGTATGCAGTTGCATGTGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-210-3p(2), mmu-miR-1187(2), mmu-miR-137-3p(1), mmu-miR-705(1), mmu-miR-188-3p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGATTTCTGGATGTAAGTACTGTGT
siRNA sets
ACACAGTACTTACATCCAG, ACTTACATCCAGAAATCAG, GTACTTACATCCAGAAATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIMAP4K4_702_ORF_1
0.6016
-0.140232011
0.048477353
243
ORF sequence:
ATGCACAATCATTGCTTGTCATCGACCTTATTCTTGGTAAGTTTGGTGTTTGCAGTACTGGCTTTCAGAATAAGTGTGAATGAGCGCTCCTGTGTCTTGAGTGCTGCCCTTGGTCTCTGGGCTGATGACTTTGACTGCTTCCTCGATCCTTATCATGGCAGTCAGTCATGTGACTGTGGGTACTTGTGGGGTTTTAAGCCTATTGAAGTTTTAGGTTCCTCTTTAACTGATTTCTGGATGTAA
Peptide sequence:
MHNHCLSSTLFLVSLVFAVLAFRISVNERSCVLSAALGLWADDFDCFLDPYHGSQSCDCGYLWGFKPIEVLGSSLTDFWM
IRESfinder result
IRESfinder score
0.747723462
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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