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mmu_circKidins220_339
Basic information of circular RNA
PanCircBase ID:
mmu_circKidins220_339
mm39_Chr. Position ID:
chr12|25032235|25038629|+
Gene name:
Kidins220
Transcript:
ENSMUST00000066652.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,4667,6295
Genomic length:
6394
Exon/intron sizes in nt:
141,99,99
Flanking exon/introns:
chr12:25025061-25032235|chr12:25038629-25039736
Splice length:
339
Other database IDs:
circBase: hsa_circ_0121167, circAtlas: hsa-KIDINS220_0010, CIRCpedia: HSA_CIRCpedia_91304
Human Ortholog IDs:
Mature spliced Sequence:
GTGAATTAAAGTCGGCTATAGATTTCTGTGAAAATGTCGGTTCTTATATCACAGAGTGTGATAAATTATGTGGAAGAAGAGAATATTCCTGCTCTGAAAGCCCTTCTTGAGAAGTGCAAAGATGTAGATGAGAGGAACGAGTGTGGCCAGACGCCACTGATGATAGCTGCTGAACAGGGCAATGTGGAAATAGTGAAAGAACTCATTAAGAATGGAGCCAACTGCAACCTGGAAGACCTGGATAACTGGACTGCGCTTATATCAGCATCTAAAGAGGGGCACATCCACATTGTGGAAGAGCTGCTGAAGTGTGGGGCCAATCTGGAGCACCGTGACATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGGGGCACATCCACATTG
60.03
AGCAGGAATATTCTCTTCTTCCACA
59.81
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGGGGCACATCCACATTG
60.03
GCAGGAATATTCTCTTCTTCCACA
58.57
159
PCR template sequence:
GGATAACTGGACTGCGCTTATATCAGCATCTAAAGAGGGGCACATCCACATTGTGGAAGAGCTGCTGAAGTGTGGGGCCAATCTGGAGCACCGTGACATGGTGAATTAAAGTCGGCTATAGATTTCTGTGAAAATGTCGGTTCTTATATCACAGAGTGTGATAAATTATGTGGAAGAAGAGAATATTCCTGCTCTGAAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-136-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCACCGTGACATGGTGAATTAAAGTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKIDINS220_339_ORF_1
1.1164
0.318111156
0.59650007
315
ORF sequence:
ATGTCGGTTCTTATATCACAGAGTGTGATAAATTATGTGGAAGAAGAGAATATTCCTGCTCTGAAAGCCCTTCTTGAGAAGTGCAAAGATGTAGATGAGAGGAACGAGTGTGGCCAGACGCCACTGATGATAGCTGCTGAACAGGGCAATGTGGAAATAGTGAAAGAACTCATTAAGAATGGAGCCAACTGCAACCTGGAAGACCTGGATAACTGGACTGCGCTTATATCAGCATCTAAAGAGGGGCACATCCACATTGTGGAAGAGCTGCTGAAGTGTGGGGCCAATCTGGAGCACCGTGACATGGTGAATTAA
Peptide sequence:
MSVLISQSVINYVEEENIPALKALLEKCKDVDERNECGQTPLMIAAEQGNVEIVKELIKNGANCNLEDLDNWTALISASKEGHIHIVEELLKCGANLEHRDMVN
IRESfinder result
IRESfinder score
0.4314238
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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