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mmu_circMap4k2_925
Basic information of circular RNA
PanCircBase ID:
mmu_circMap4k2_925
mm39_Chr. Position ID:
chr19|6391932|6395640|+
Gene name:
Map4k2
Transcript:
ENSMUST00000025897.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
14
Exon/intron indexes:
4,5,6,7,8,9,10,11,12,13,14,15,16,17
Exon/intron offsets:
0,352,707,841,1201,1352,1558,1899,2069,2504,2687,3416,3541,3674
Genomic length:
3708
Exon/intron sizes in nt:
65,56,48,43,73,132,63,82,108,79,59,44,39,34
Flanking exon/introns:
chr19:6391864-6391932|chr19:6395640-6395757
Splice length:
925
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACGCCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAGGGGCTCCACCACCTGCATTCTCAGGGGAAAATTCACCGAGACATTAAGGGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGGCGGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATACTGGATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGAGGGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTGGACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAGCACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAGACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGTTTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCGTGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGGGAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAGGAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGAGGAAAGGAGCCTGACT
60.18
GCAATCTGCCGTTCTTCCAG
59.55
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGAGGAAAGGAGCCTGAC
59.75
GCAATCTGCCGTTCTTCCAG
59.55
141
PCR template sequence:
GCTCCTGGGAAAAGAGGAACTGAGTGGGAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAGGAGCCTGACTATCCGGCCAGCCTTAGAACTCCAGGAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACGCCACTGGGCCCCTGGAAGAACGGCAGATTGCCTAT
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-223-3p(1), mmu-miR-214-3p(1), mmu-miR-351-5p(1), mmu-miR-494-3p(1), mmu-miR-484(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTAGAACTCCAGGAATGACCGATTG
siRNA sets
CAATCGGTCATTCCTGGAG, AATCGGTCATTCCTGGAGT, ATCGGTCATTCCTGGAGTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMAP4K2_925_ORF_1
1.2376
0.373201649
0.993944159
909
ORF sequence:
ATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACGCCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAGGGGCTCCACCACCTGCATTCTCAGGGGAAAATTCACCGAGACATTAAGGGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGGCGGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATACTGGATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGAGGGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTGGACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAGCACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAGACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGTTTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCGTGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGGGAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAGGAGCCTGACTATCCGGCCAGCCTTAGAACTCCAGGAATGA
Peptide sequence:
MEFCGGGSLQEIYHATGPLEERQIAYVCREALKGLHHLHSQGKIHRDIKGANLLLTLQGDVKLADFGVSGELTASVAKRRSFIGTPYWMAPEVAAVERKGGYNELCDVWALGITAIELGELQPPLFHLHPMRALMLMSKSSFQPPKLRDKTRWTQNFHHFLKLALTKNPKKRPTAERLLQHPFTTQHLPPALLTQLLDKASDPHLGTLSPEDSELETHDMFPDTIHSRSHHGPAERTPSEIQFHQVKFGAPRRKETDPLNEPWEEEWTLLGKEELSGSLLQSVQEALEERSLTIRPALELQE
IRESfinder result
IRESfinder score
0.388606714
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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