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mmu_circMap4k4_1110
Basic information of circular RNA
PanCircBase ID:
mmu_circMap4k4_1110
mm39_Chr. Position ID:
chr1|40001337|40029459|+
Gene name:
Map4k4
Transcript:
ENSMUST00000163854.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
3,4,5,6,7,8,9,10,11,12
Exon/intron offsets:
0,11749,14529,18382,20961,21705,23004,24447,26792,27911
Genomic length:
28122
Exon/intron sizes in nt:
57,12,61,11,91,13,15,50,00,00,00,000
Flanking exon/introns:
chr1:39940734-40001337|chr1:40029459-40036180
Splice length:
1110
Other database IDs:
CIRCpedia: MMU_CIRCpedia_19265, circAtlas: mmu-Map4k4_0014
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_134572
Human Ortholog IDs:
Mature spliced Sequence:
GGTCGACATGTTAAAACGGGTCAGCTGGCCGCCATCAAGGTTATGGACGTCACCGAGGATGAAGAGGAAGAAATCAAACTGGAGATAAATATGCTGAAGAAGTATTCTCATCATCGAAATATTGCCACGTACTATGGTGCTTTCATTAAGAAGAGCCCTCCAGGACATGATGACCAACTCTGGCTTGTTATGGAGTTTTGTGGGGCTGGGTCCATCACAGACCTTGTGAAGAACACCAAAGGGAACACTCTCAAAGAAGACTGGATTGCTTACATCTCCAGGGAAATCCTCAGGGGATTGGCACATCTCCATATTCACCACGTTATTCACCGAGATATCAAGGGCCAAAATGTGCTGCTGACCGAGAATGCTGAGGTGAAACTTGTTGATTTTGGTGTAAGCGCTCAGCTGGACAGGACGGTTGGACGGAGAAATACGTTCATAGGCACACCCTACTGGATGGCTCCAGAGGTCATCGCCTGTGATGAGAACCCAGACGCCACTTACGACTACAGAAGTGACCTCTGGTCCTGTGGCATCACAGCCATCGAGATGGCTGAAGGGGCCCCCCCTCTCTGTGACATGCATCCAATGAGAGCGCTGTTTCTCATCCCCAGAAACCCTCCTCCCAGGCTGAAGTCAAAAAAATGGTCAAAGAAATTTTTCAGCTTTATAGAAGGCTGTCTGGTGAAGAATTACATGCAGCGGCCCTCTACAGAGCAACTTTTAAAACACCCTTTCATAAGGGATCAGCCCAATGAAAGGCAGGTTCGAATCCAGCTTAAGGATCACATAGACCGGACCAGAAAGAAGAGAGGCGAGAAAGATGAGACGGAGTACGAGTACAGCGGGAGCGAGGAGGAGGAGGAGGAAGTGCCTGAGCAGGAGGGAGAGCCAAGTTCCATCGTCAATGTGCCTGGAGAGTCAACTCTGCGACGTGATTTCCTGAGACTGCAGCAGGAGAACAAGGAGCGGTCTGAGGCTCTGCGGAGACAGCAGCTTCTGCAGGAGCAGCAGCTCCGGGAGCAGGAGGAGTATAAGAGGCAGCTGCTGGCTGAGAGGCAGAAGCGGATTGAACAGCAGAAAGAACAGAGGAGGCGGCTGGAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGGGAGCAGGAGGAGTATA
59.89
CGTCCATAACCTTGATGGCG
59.06
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCGGGAGCAGGAGGAGTATA
59.89
TCCTCTTCATCCTCGGTGAC
58.52
159
PCR template sequence:
GCAGCAGCTCCGGGAGCAGGAGGAGTATAAGAGGCAGCTGCTGGCTGAGAGGCAGAAGCGGATTGAACAGCAGAAAGAACAGAGGAGGCGGCTGGAAGAGGGTCGACATGTTAAAACGGGTCAGCTGGCCGCCATCAAGGTTATGGACGTCACCGAGGATGAAGAGGAAGAAATCAAACTGGAGATAAATATGCTGAAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-351-5p(1), mmu-miR-340-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GCGGCTGGAAGAGGGTCGACATGTTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMAP4K4_1110_ORF_1
1.2549
0.375909292
0.99999938
2178
ORF sequence:
ATGGACGTCACCGAGGATGAAGAGGAAGAAATCAAACTGGAGATAAATATGCTGAAGAAGTATTCTCATCATCGAAATATTGCCACGTACTATGGTGCTTTCATTAAGAAGAGCCCTCCAGGACATGATGACCAACTCTGGCTTGTTATGGAGTTTTGTGGGGCTGGGTCCATCACAGACCTTGTGAAGAACACCAAAGGGAACACTCTCAAAGAAGACTGGATTGCTTACATCTCCAGGGAAATCCTCAGGGGATTGGCACATCTCCATATTCACCACGTTATTCACCGAGATATCAAGGGCCAAAATGTGCTGCTGACCGAGAATGCTGAGGTGAAACTTGTTGATTTTGGTGTAAGCGCTCAGCTGGACAGGACGGTTGGACGGAGAAATACGTTCATAGGCACACCCTACTGGATGGCTCCAGAGGTCATCGCCTGTGATGAGAACCCAGACGCCACTTACGACTACAGAAGTGACCTCTGGTCCTGTGGCATCACAGCCATCGAGATGGCTGAAGGGGCCCCCCCTCTCTGTGACATGCATCCAATGAGAGCGCTGTTTCTCATCCCCAGAAACCCTCCTCCCAGGCTGAAGTCAAAAAAATGGTCAAAGAAATTTTTCAGCTTTATAGAAGGCTGTCTGGTGAAGAATTACATGCAGCGGCCCTCTACAGAGCAACTTTTAAAACACCCTTTCATAAGGGATCAGCCCAATGAAAGGCAGGTTCGAATCCAGCTTAAGGATCACATAGACCGGACCAGAAAGAAGAGAGGCGAGAAAGATGAGACGGAGTACGAGTACAGCGGGAGCGAGGAGGAGGAGGAGGAAGTGCCTGAGCAGGAGGGAGAGCCAAGTTCCATCGTCAATGTGCCTGGAGAGTCAACTCTGCGACGTGATTTCCTGAGACTGCAGCAGGAGAACAAGGAGCGGTCTGAGGCTCTGCGGAGACAGCAGCTTCTGCAGGAGCAGCAGCTCCGGGAGCAGGAGGAGTATAAGAGGCAGCTGCTGGCTGAGAGGCAGAAGCGGATTGAACAGCAGAAAGAACAGAGGAGGCGGCTGGAAGAGGGTCGACATGTTAAAACGGGTCAGCTGGCCGCCATCAAGGTTATGGACGTCACCGAGGATGAAGAGGAAGAAATCAAACTGGAGATAAATATGCTGAAGAAGTATTCTCATCATCGAAATATTGCCACGTACTATGGTGCTTTCATTAAGAAGAGCCCTCCAGGACATGATGACCAACTCTGGCTTGTTATGGAGTTTTGTGGGGCTGGGTCCATCACAGACCTTGTGAAGAACACCAAAGGGAACACTCTCAAAGAAGACTGGATTGCTTACATCTCCAGGGAAATCCTCAGGGGATTGGCACATCTCCATATTCACCACGTTATTCACCGAGATATCAAGGGCCAAAATGTGCTGCTGACCGAGAATGCTGAGGTGAAACTTGTTGATTTTGGTGTAAGCGCTCAGCTGGACAGGACGGTTGGACGGAGAAATACGTTCATAGGCACACCCTACTGGATGGCTCCAGAGGTCATCGCCTGTGATGAGAACCCAGACGCCACTTACGACTACAGAAGTGACCTCTGGTCCTGTGGCATCACAGCCATCGAGATGGCTGAAGGGGCCCCCCCTCTCTGTGACATGCATCCAATGAGAGCGCTGTTTCTCATCCCCAGAAACCCTCCTCCCAGGCTGAAGTCAAAAAAATGGTCAAAGAAATTTTTCAGCTTTATAGAAGGCTGTCTGGTGAAGAATTACATGCAGCGGCCCTCTACAGAGCAACTTTTAAAACACCCTTTCATAAGGGATCAGCCCAATGAAAGGCAGGTTCGAATCCAGCTTAAGGATCACATAGACCGGACCAGAAAGAAGAGAGGCGAGAAAGATGAGACGGAGTACGAGTACAGCGGGAGCGAGGAGGAGGAGGAGGAAGTGCCTGAGCAGGAGGGAGAGCCAAGTTCCATCGTCAATGTGCCTGGAGAGTCAACTCTGCGACGTGATTTCCTGAGACTGCAGCAGGAGAACAAGGAGCGGTCTGAGGCTCTGCGGAGACAGCAGCTTCTGCAGGAGCAGCAGCTCCGGGAGCAGGAGGAGTATAAGAGGCAGCTGCTGGCTGAGAGGCAGAAGCGGATTGAACAGCAGAAAGAACAGAGGAGGCGGCTGGAAGAG
Peptide sequence:
MDVTEDEEEEIKLEINMLKKYSHHRNIATYYGAFIKKSPPGHDDQLWLVMEFCGAGSITDLVKNTKGNTLKEDWIAYISREILRGLAHLHIHHVIHRDIKGQNVLLTENAEVKLVDFGVSAQLDRTVGRRNTFIGTPYWMAPEVIACDENPDATYDYRSDLWSCGITAIEMAEGAPPLCDMHPMRALFLIPRNPPPRLKSKKWSKKFFSFIEGCLVKNYMQRPSTEQLLKHPFIRDQPNERQVRIQLKDHIDRTRKKRGEKDETEYEYSGSEEEEEEVPEQEGEPSSIVNVPGESTLRRDFLRLQQENKERSEALRRQQLLQEQQLREQEEYKRQLLAERQKRIEQQKEQRRRLEEGRHVKTGQLAAIKVMDVTEDEEEEIKLEINMLKKYSHHRNIATYYGAFIKKSPPGHDDQLWLVMEFCGAGSITDLVKNTKGNTLKEDWIAYISREILRGLAHLHIHHVIHRDIKGQNVLLTENAEVKLVDFGVSAQLDRTVGRRNTFIGTPYWMAPEVIACDENPDATYDYRSDLWSCGITAIEMAEGAPPLCDMHPMRALFLIPRNPPPRLKSKKWSKKFFSFIEGCLVKNYMQRPSTEQLLKHPFIRDQPNERQVRIQLKDHIDRTRKKRGEKDETEYEYSGSEEEEEEVPEQEGEPSSIVNVPGESTLRRDFLRLQQENKERSEALRRQQLLQEQQLREQEEYKRQLLAERQKRIEQQKEQRRRLEE
IRESfinder result
IRESfinder score
0.376319052
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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