top of page
mmu_circIde_872
Basic information of circular RNA
PanCircBase ID:
mmu_circIde_872
mm39_Chr. Position ID:
chr19|37281292|37295498|-
Gene name:
Ide
Transcript:
ENSMUST00000131070.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
12,11,10,9,8,7,6,5
Exon/intron offsets:
0,5894,8189,9616,10086,10940,11511,14083
Genomic length:
14206
Exon/intron sizes in nt:
10,31,04,81,92,93,16,30,00,000
Flanking exon/introns:
chr19:37275573-37281292|chr19:37295498-37302546
Splice length:
872
Other database IDs:
CIRCpedia: MMU_CIRCpedia_18508, circAtlas: mmu-Ide_0046
Human Ortholog IDs:
Mature spliced Sequence:
GAAACAAATATACTCTAGAGACTCGGCCCAACCAAGAAGGCATCGACGTAAGGGAAGAGCTCTTGAAATTTCACTCTACGTATTATTCGTCCAATCTGATGGCGATTTGTGTTTTAGGTCGAGAATCCTTAGACGACCTCACTAACCTGGTGGTGAAGCTGTTCTCCGAGGTGGAGAACAAGAACGTTCCTCTGCCTGAGTTCCCTGAGCACCCTTTCCAGGAAGAGCATCTCAGGCAACTTTATAAAATAGTACCCATTAAGGATATTAGAAATCTTTATGTGACATTTCCCATACCAGACCTTCAGCAGTACTACAAATCCAATCCTGGTCATTATCTTGGTCATCTAATTGGGCACGAAGGTCCTGGAAGCCTGTTGTCAGAACTCAAATCAAAGGGCTGGGTGAATACCCTGGTTGGTGGACAGAAGGAAGGAGCCCGAGGTTTTATGTTTTTTATCATTAATGTGGACTTAACTGAAGAAGGGTTATTGCACGTTGAAGATATAATTTTGCACATGTTTCAATACATTCAGAAGCTACGTGCAGAAGGACCTCAAGAATGGGTTTTCCAAGAGTGCAAGGACTTGAATGCTGTTGCTTTCAGATTTAAAGATAAAGAGAGACCACGAGGCTATACGTCCAAGATTGCAGGAAAGTTGCACTATTATCCCCTAAATGGAGTGCTCACAGCTGAATATCTATTGGAGGAATTTAGACCCGACTTGATAGACATGGTTCTTGATAAACTCAGACCAGAAAATGTGCGGGTGGCAATAGTTTCCAAATCATTTGAAGGGAAAACTGACCGCACAGAGCAGTGGTATGGAACACAGTATAAGCAAGAAGCTATCCCAGAGGACATCATTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGGAAAACTGACCGCACA
60.11
AGAGCTCTTCCCTTACGTCG
58.9
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGGGAAAACTGACCGCA
59.82
GAGCTCTTCCCTTACGTCGA
58.91
141
PCR template sequence:
GGCAATAGTTTCCAAATCATTTGAAGGGAAAACTGACCGCACAGAGCAGTGGTATGGAACACAGTATAAGCAAGAAGCTATCCCAGAGGACATCATTCAGGAAACAAATATACTCTAGAGACTCGGCCCAACCAAGAAGGCATCGACGTAAGGGAAGAGCTCTTGAAATTTCACTCTACGTATTATTCGTCCAATCTGAT
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-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-223-3p(1), mmu-miR-322-5p(1), mmu-miR-19a-3p(1), mmu-miR-298-5p(1), mmu-miR-136-5p(1), mmu-miR-96-5p(1), mmu-miR-301b-3p(1), mmu-miR-541-5p(1), mmu-miR-301a-3p(1), mmu-miR-369-3p(1), mmu-miR-532-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGACATCATTCAGGAAACAAATATAC
siRNA sets
ATATTTGTTTCCTGAATGA, ATTTGTTTCCTGAATGATG, TGTTTCCTGAATGATGTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIDE_872_ORF_1
1.0543
0.098068364
0.942299075
792
ORF sequence:
ATGGCGATTTGTGTTTTAGGTCGAGAATCCTTAGACGACCTCACTAACCTGGTGGTGAAGCTGTTCTCCGAGGTGGAGAACAAGAACGTTCCTCTGCCTGAGTTCCCTGAGCACCCTTTCCAGGAAGAGCATCTCAGGCAACTTTATAAAATAGTACCCATTAAGGATATTAGAAATCTTTATGTGACATTTCCCATACCAGACCTTCAGCAGTACTACAAATCCAATCCTGGTCATTATCTTGGTCATCTAATTGGGCACGAAGGTCCTGGAAGCCTGTTGTCAGAACTCAAATCAAAGGGCTGGGTGAATACCCTGGTTGGTGGACAGAAGGAAGGAGCCCGAGGTTTTATGTTTTTTATCATTAATGTGGACTTAACTGAAGAAGGGTTATTGCACGTTGAAGATATAATTTTGCACATGTTTCAATACATTCAGAAGCTACGTGCAGAAGGACCTCAAGAATGGGTTTTCCAAGAGTGCAAGGACTTGAATGCTGTTGCTTTCAGATTTAAAGATAAAGAGAGACCACGAGGCTATACGTCCAAGATTGCAGGAAAGTTGCACTATTATCCCCTAAATGGAGTGCTCACAGCTGAATATCTATTGGAGGAATTTAGACCCGACTTGATAGACATGGTTCTTGATAAACTCAGACCAGAAAATGTGCGGGTGGCAATAGTTTCCAAATCATTTGAAGGGAAAACTGACCGCACAGAGCAGTGGTATGGAACACAGTATAAGCAAGAAGCTATCCCAGAGGACATCATTCAGGAAACAAATATACTCTAG
Peptide sequence:
MAICVLGRESLDDLTNLVVKLFSEVENKNVPLPEFPEHPFQEEHLRQLYKIVPIKDIRNLYVTFPIPDLQQYYKSNPGHYLGHLIGHEGPGSLLSELKSKGWVNTLVGGQKEGARGFMFFIINVDLTEEGLLHVEDIILHMFQYIQKLRAEGPQEWVFQECKDLNAVAFRFKDKERPRGYTSKIAGKLHYYPLNGVLTAEYLLEEFRPDLIDMVLDKLRPENVRVAIVSKSFEGKTDRTEQWYGTQYKQEAIPEDIIQETNIL
IRESfinder result
IRESfinder score
0.699136621
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page