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mmu_circMap4k4_1100
Basic information of circular RNA
PanCircBase ID:
mmu_circMap4k4_1100
mm39_Chr. Position ID:
chr1|40049716|40062679|+
Gene name:
Map4k4
Transcript:
ENSMUST00000163854.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
22,23,24,25,26,27,28,29
Exon/intron offsets:
0,3549,3970,6553,8987,10527,12148,12803
Genomic length:
12963
Exon/intron sizes in nt:
1,21,11,81,71,14,41,35,00,00,00,000
Flanking exon/introns:
chr1:40049023-40049716|chr1:40062679-40063469
Splice length:
1100
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_168863
Human Ortholog IDs:
Mature spliced Sequence:
GTCATCTCCGAACCTGAGCAACGGTGAAACAGAATCTGTGAAAACAATGATCGTTCATGATGATGTAGAAAGTGAGCCAGCCATGACCCCGTCCAAGGAGGGCACCCTCATCGTCCGCCAGACTCAGTCCGCTAGTAGCACACTCCAGAAACACAAATCTTCCTCCTCCTTTACACCTTTTATAGACCCCAGGTTACTACAGATCTCTCCATCTAGTGGGACGACAGTGACTTCCGTGGTGGGATTTTCCTGTGATGGGCTGAGACCAGAAGCCATAAGGCAAGATCCTACTCGGAAAGGCTCAGTGGTCAATGTGAACCCCACGAACACTAGGCCACAGAGTGATACCCCCGAGATTCGTAAATACAAGAAGAGATTTAACTCAGAGATCCTGTGTGCTGCCTTATGGGGAGTGAACTTGCTGGTTGGTACAGAGAGCGGTCTGATGCTCTTGGACAGAAGTGGCCAAGGGAAAGTATACCCTCTGATCAGCCGAAGACGGTTCCAGCAAATGGATGTGCTCGAAGGCCTAAATGTCCTGGTGACAATATCTGGCAAAAAGGATAAGTTACGTGTCTACTATTTATCCTGGCTAAGAAATAAGATTCTTCATAATGATCCAGAGGTTGAGAAGAAGCAGGGGTGGACCACTGTGGGCGACTTGGAAGGGTGCGTGCACTATAAAGTCGTAAAATATGAAAGAATCAAGTTTCTGGTAATTGCTTTGAAGAGTTCTGTGGAAGTCTATGCATGGGCACCGAAGCCATATCACAAATTTATGGCCTTTAAGTCATTTGGAGAACTGCTACATAAGCCATTACTGGTGGATCTCACTGTGGAGGAAGGCCAGAGGTTGAAAGTGATCTATGGATCCTGTGCGGGATTCCATGCTGTTGATGTGGATTCAGGCTCAGTCTATGACATTTATCTACCAACACATATTCAGTGTAGCATCAAACCCCATGCAATCATTATCCTCCCCAACACGGATGGGATGGAGCTGCTGGTGTGCTACGAAGACGAGGGGGTTTACGTTAACACGTACGGAAGGATCACCAAGGACGTGGTTCTGCAGTGGGGAGAGATGCCGACATCTGTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGATCACCAAGGACGTGG
59.68
GGTCATGGCTGGCTCACTTT
60.61
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGAAGACGAGGGGGTTTACG
60.46
GGTCATGGCTGGCTCACTTT
60.61
174
PCR template sequence:
CTGCTGGTGTGCTACGAAGACGAGGGGGTTTACGTTAACACGTACGGAAGGATCACCAAGGACGTGGTTCTGCAGTGGGGAGAGATGCCGACATCTGTAGGTCATCTCCGAACCTGAGCAACGGTGAAACAGAATCTGTGAAAACAATGATCGTTCATGATGATGTAGAAAGTGAGCCAGCCATGACCCCGTCCAAGGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-23b-3p(1), mmu-miR-7b-5p(1), mmu-miR-135a-5p(1), mmu-miR-122-5p(1), mmu-miR-23a-3p(1), mmu-miR-185-5p(1), mmu-miR-128-3p(1), mmu-miR-149-5p(1), mmu-miR-383-5p(1), mmu-miR-224-5p(1), mmu-miR-1198-5p(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
CCGACATCTGTAGGTCATCTCCGAAC
siRNA sets
GATGACCTACAGATGTCGG, TTCGGAGATGACCTACAGA, GAGATGACCTACAGATGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMAP4K4_1100_ORF_1
0.9069
0.193464522
0.99269348
1071
ORF sequence:
ATGATCGTTCATGATGATGTAGAAAGTGAGCCAGCCATGACCCCGTCCAAGGAGGGCACCCTCATCGTCCGCCAGACTCAGTCCGCTAGTAGCACACTCCAGAAACACAAATCTTCCTCCTCCTTTACACCTTTTATAGACCCCAGGTTACTACAGATCTCTCCATCTAGTGGGACGACAGTGACTTCCGTGGTGGGATTTTCCTGTGATGGGCTGAGACCAGAAGCCATAAGGCAAGATCCTACTCGGAAAGGCTCAGTGGTCAATGTGAACCCCACGAACACTAGGCCACAGAGTGATACCCCCGAGATTCGTAAATACAAGAAGAGATTTAACTCAGAGATCCTGTGTGCTGCCTTATGGGGAGTGAACTTGCTGGTTGGTACAGAGAGCGGTCTGATGCTCTTGGACAGAAGTGGCCAAGGGAAAGTATACCCTCTGATCAGCCGAAGACGGTTCCAGCAAATGGATGTGCTCGAAGGCCTAAATGTCCTGGTGACAATATCTGGCAAAAAGGATAAGTTACGTGTCTACTATTTATCCTGGCTAAGAAATAAGATTCTTCATAATGATCCAGAGGTTGAGAAGAAGCAGGGGTGGACCACTGTGGGCGACTTGGAAGGGTGCGTGCACTATAAAGTCGTAAAATATGAAAGAATCAAGTTTCTGGTAATTGCTTTGAAGAGTTCTGTGGAAGTCTATGCATGGGCACCGAAGCCATATCACAAATTTATGGCCTTTAAGTCATTTGGAGAACTGCTACATAAGCCATTACTGGTGGATCTCACTGTGGAGGAAGGCCAGAGGTTGAAAGTGATCTATGGATCCTGTGCGGGATTCCATGCTGTTGATGTGGATTCAGGCTCAGTCTATGACATTTATCTACCAACACATATTCAGTGTAGCATCAAACCCCATGCAATCATTATCCTCCCCAACACGGATGGGATGGAGCTGCTGGTGTGCTACGAAGACGAGGGGGTTTACGTTAACACGTACGGAAGGATCACCAAGGACGTGGTTCTGCAGTGGGGAGAGATGCCGACATCTGTAGGTCATCTCCGAACCTGA
Peptide sequence:
MIVHDDVESEPAMTPSKEGTLIVRQTQSASSTLQKHKSSSSFTPFIDPRLLQISPSSGTTVTSVVGFSCDGLRPEAIRQDPTRKGSVVNVNPTNTRPQSDTPEIRKYKKRFNSEILCAALWGVNLLVGTESGLMLLDRSGQGKVYPLISRRRFQQMDVLEGLNVLVTISGKKDKLRVYYLSWLRNKILHNDPEVEKKQGWTTVGDLEGCVHYKVVKYERIKFLVIALKSSVEVYAWAPKPYHKFMAFKSFGELLHKPLLVDLTVEEGQRLKVIYGSCAGFHAVDVDSGSVYDIYLPTHIQCSIKPHAIIILPNTDGMELLVCYEDEGVYVNTYGRITKDVVLQWGEMPTSVGHLRT
IRESfinder result
IRESfinder score
0.46642451
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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