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mmu_circSlc38a7_443
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc38a7_443
mm39_Chr. Position ID:
chr8|96571515|96572959|-
Gene name:
Slc38a7
Transcript:
ENSMUST00000040481.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
6,5,4
Exon/intron offsets:
0,911,1245
Genomic length:
1444
Exon/intron sizes in nt:
9,91,45,199
Flanking exon/introns:
chr8:96570789-96571515|chr8:96572959-96575008
Splice length:
443
Other database IDs:
CIRCpedia: MMU_CIRCpedia_215989, circAtlas: mmu-Slc38a7_0001
circBase: hsa_circ_0039704, circAtlas: hsa-SLC38A7_0001, CIRCpedia: HSA_CIRCpedia_18086
Human Ortholog IDs:
Mature spliced Sequence:
GGCATGCTGGTTTTTATCATCAGTGGGCTGGTCATTCTGGCCTACTGCTCTCAAGCCAGCAATGAGAGGACCTACCAGGAGGTGGTGTGGGCCGTGTGTGGCAAGCTGACAGGTGTGCTGTGTGAGGTAGCCATTGCGGTCTATACCTTCGGAACCTGCATCGCCTTCCTCATCATTATTGGGGACCAGCAGGACAAGATTATAGCTGTGATGTCGAAGGAGCCGGATGGGGCCAGCGGCAGCCCCTGGTACACAGACCGCAAGTTCACCATCAGTCTTACCGCCTTCCTCTTCATCCTGCCCCTGTCCATCCCCAAGGAGATTGGCTTCCAGAAATATGCCAGCTTCCTGAGCGTCGTGGGCACCTGGTACGTCACCGCCATTATAATCATCAAATACATCTGGCCAGATAAAGAGATGCGCCCGGGGGACATCTTGACTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTCCTGAGCGTCGTGGG
60.13
GGTCCTCTCATTGCTGGCTT
60.03
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTCCTGAGCGTCGTGGG
60.13
GCAGTAGGCCAGAATGACCA
59.75
147
PCR template sequence:
GCTTCCTGAGCGTCGTGGGCACCTGGTACGTCACCGCCATTATAATCATCAAATACATCTGGCCAGATAAAGAGATGCGCCCGGGGGACATCTTGACTAGGGCATGCTGGTTTTTATCATCAGTGGGCTGGTCATTCTGGCCTACTGCTCTCAAGCCAGCAATGAGAGGACCTACCAGGAGGTGGTGTGGGCCGTGTGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-223-3p(1), mmu-miR-499-5p(1), mmu-miR-342-3p(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACATCTTGACTAGGGCATGCTGGTTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC38A7_443_ORF_1
1.1355
0.294338291
0.882154202
549
ORF sequence:
ATGCTGGTTTTTATCATCAGTGGGCTGGTCATTCTGGCCTACTGCTCTCAAGCCAGCAATGAGAGGACCTACCAGGAGGTGGTGTGGGCCGTGTGTGGCAAGCTGACAGGTGTGCTGTGTGAGGTAGCCATTGCGGTCTATACCTTCGGAACCTGCATCGCCTTCCTCATCATTATTGGGGACCAGCAGGACAAGATTATAGCTGTGATGTCGAAGGAGCCGGATGGGGCCAGCGGCAGCCCCTGGTACACAGACCGCAAGTTCACCATCAGTCTTACCGCCTTCCTCTTCATCCTGCCCCTGTCCATCCCCAAGGAGATTGGCTTCCAGAAATATGCCAGCTTCCTGAGCGTCGTGGGCACCTGGTACGTCACCGCCATTATAATCATCAAATACATCTGGCCAGATAAAGAGATGCGCCCGGGGGACATCTTGACTAGGGCATGCTGGTTTTTATCATCAGTGGGCTGGTCATTCTGGCCTACTGCTCTCAAGCCAGCAATGAGAGGACCTACCAGGAGGTGGTGTGGGCCGTGTGTGGCAAGCTGA
Peptide sequence:
MLVFIISGLVILAYCSQASNERTYQEVVWAVCGKLTGVLCEVAIAVYTFGTCIAFLIIIGDQQDKIIAVMSKEPDGASGSPWYTDRKFTISLTAFLFILPLSIPKEIGFQKYASFLSVVGTWYVTAIIIIKYIWPDKEMRPGDILTRACWFLSSVGWSFWPTALKPAMRGPTRRWCGPCVAS
IRESfinder result
IRESfinder score
0.33720704
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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