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mmu_circSlc6a17_1386
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc6a17_1386
mm39_Chr. Position ID:
chr3|107384043|107408056|-
Gene name:
Slc6a17
Transcript:
ENSMUST00000169449.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
8,7,6,5,4,3,2
Exon/intron offsets:
0,449,14692,16331,17209,18938,23640
Genomic length:
24013
Exon/intron sizes in nt:
193,242,111,182,127,158,373
Flanking exon/introns:
chr3:107381780-107384043|chr3:107408056-107424921
Splice length:
1386
Other database IDs:
circAtlas: mmu-Slc6a17_0021
Human Ortholog IDs:
Mature spliced Sequence:
GCTTTTGGATGAGAAAAAGCTGACAGGAACCGAGCCCCACCTTCTCTGTGTGCTGGGGAACAGGGCTACACGGCCCCAGTGGCACCCATGCCGAAGAACAGCAAGGTGACCCAGCGCGAACACAGCAATGAGCATGTCACCGAGTCAGTGGCTGACTTGCTGGCTCTGGAGGAGCCTGTGGACTACAAGCAGAGTGTACTGAACGTGGCCGGCGAGACAGGTGGCAAGCAGAAGGTGGCGGAGGAGGAGCTGGACACAGAGGACCGGCCAGCCTGGAATAGCAAGCTGCAGTACATCCTGGCCCAGATTGGCTTCTCTGTGGGCCTGGGCAACATCTGGAGGTTCCCCTACCTGTGCCAGAAAAATGGAGGAGGTGCCTATCTGGTGCCCTATCTGGTGCTGCTTATCATCATTGGCATCCCCCTCTTCTTTCTGGAGCTGGCTGTGGGCCAGAGGATCCGCCGTGGCAGCATTGGTGTGTGGCACTATGTGTGCCCCCGCCTGGGGGGCATCGGCTTTTCCAGCTGTATTGTCTGCCTCTTCGTTGGGCTGTACTACAATGTGATCATTGGGTGGAGCGTCTTCTATTTCTTCAAGTCTTTCCAGTACCCACTGCCCTGGAGTGAATGTCCTGTCATCAGGAATGGGACTGTAGCAGTGGTGGAGCCTGAGTGTGAGAAGAGCTCAGCTACTACCTACTTTTGGTACCGAGAGGCCTTGGACATCTCCAACTCGATTTCAGAGAGTGGGGGCCTCAACTGGAAGATGACACTCTGCCTCCTTGTGGCCTGGAGCATCGTGGGCATGGCTGTCGTCAAGGGCATCCAGTCCTCTGGAAAGGTAATGTATTTCAGCTCCCTCTTCCCTTATGTGGTGTTGGCCTGCTTCCTGGTCCGGGGGCTGCTGCTTCGAGGGGCAGTGGATGGCATCCTGCACATGTTCACTCCTAAGCTGGACAAGATGCTGGACCCCCAGGTGTGGCGGGAGGCAGCCACACAGGTCTTCTTCGCCCTGGGGCTGGGCTTTGGAGGCGTCATCGCCTTTTCCAGCTACAACAAACAGGACAATAACTGCCACTTCGATGCTGCCCTGGTGTCCTTCATCAACTTCTTCACCTCGGTGTTGGCCACCCTCGTGGTGTTTGCTGTGCTGGGCTTCAAAGCCAACATCATGAATGAGAAGTGTGTGGTCGAGAATGCTGAGAAAATTCTAGGGTACCTCAACTCCAATGTCTTGAGCCGGGACCTCATCCCACCTCACGTCAACTTCTCACACCTGACTACCAAGGACTACTCAGAGATGTACAGCGTCATCATGACTGTTAAGGAGAAGCAGTTCCCAGCCCTGGGCCTGGATCCCTGCCTCTTGGAGGATGAGCTGGACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTACAGCGTCATCATGACTGT
59.77
GTTCCCCAGCACACAGAGAA
59.89
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCAGAGATGTACAGCGTCA
58.56
GTTCCCCAGCACACAGAGAA
59.89
156
PCR template sequence:
GGACTACTCAGAGATGTACAGCGTCATCATGACTGTTAAGGAGAAGCAGTTCCCAGCCCTGGGCCTGGATCCCTGCCTCTTGGAGGATGAGCTGGACAAGGCTTTTGGATGAGAAAAAGCTGACAGGAACCGAGCCCCACCTTCTCTGTGTGCTGGGGAACAGGGCTACACGGCCCCAGTGGCACCCATGCCGAAGAACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-103-3p(1), mmu-miR-15b-5p(1), mmu-miR-709(1), mmu-miR-139-5p(1), mmu-miR-181b-5p(1), mmu-miR-136-5p(1), mmu-miR-127-3p(1), mmu-miR-433-3p(1), mmu-miR-362-5p(1), mmu-miR-324-3p(1), mmu-miR-107-3p(1), mmu-miR-3470b(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAGCTGGACAAGGCTTTTGGATGAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC6A17_1386_ORF_1
1.2991
0.466147435
0.999791312
1311
ORF sequence:
ATGCCGAAGAACAGCAAGGTGACCCAGCGCGAACACAGCAATGAGCATGTCACCGAGTCAGTGGCTGACTTGCTGGCTCTGGAGGAGCCTGTGGACTACAAGCAGAGTGTACTGAACGTGGCCGGCGAGACAGGTGGCAAGCAGAAGGTGGCGGAGGAGGAGCTGGACACAGAGGACCGGCCAGCCTGGAATAGCAAGCTGCAGTACATCCTGGCCCAGATTGGCTTCTCTGTGGGCCTGGGCAACATCTGGAGGTTCCCCTACCTGTGCCAGAAAAATGGAGGAGGTGCCTATCTGGTGCCCTATCTGGTGCTGCTTATCATCATTGGCATCCCCCTCTTCTTTCTGGAGCTGGCTGTGGGCCAGAGGATCCGCCGTGGCAGCATTGGTGTGTGGCACTATGTGTGCCCCCGCCTGGGGGGCATCGGCTTTTCCAGCTGTATTGTCTGCCTCTTCGTTGGGCTGTACTACAATGTGATCATTGGGTGGAGCGTCTTCTATTTCTTCAAGTCTTTCCAGTACCCACTGCCCTGGAGTGAATGTCCTGTCATCAGGAATGGGACTGTAGCAGTGGTGGAGCCTGAGTGTGAGAAGAGCTCAGCTACTACCTACTTTTGGTACCGAGAGGCCTTGGACATCTCCAACTCGATTTCAGAGAGTGGGGGCCTCAACTGGAAGATGACACTCTGCCTCCTTGTGGCCTGGAGCATCGTGGGCATGGCTGTCGTCAAGGGCATCCAGTCCTCTGGAAAGGTAATGTATTTCAGCTCCCTCTTCCCTTATGTGGTGTTGGCCTGCTTCCTGGTCCGGGGGCTGCTGCTTCGAGGGGCAGTGGATGGCATCCTGCACATGTTCACTCCTAAGCTGGACAAGATGCTGGACCCCCAGGTGTGGCGGGAGGCAGCCACACAGGTCTTCTTCGCCCTGGGGCTGGGCTTTGGAGGCGTCATCGCCTTTTCCAGCTACAACAAACAGGACAATAACTGCCACTTCGATGCTGCCCTGGTGTCCTTCATCAACTTCTTCACCTCGGTGTTGGCCACCCTCGTGGTGTTTGCTGTGCTGGGCTTCAAAGCCAACATCATGAATGAGAAGTGTGTGGTCGAGAATGCTGAGAAAATTCTAGGGTACCTCAACTCCAATGTCTTGAGCCGGGACCTCATCCCACCTCACGTCAACTTCTCACACCTGACTACCAAGGACTACTCAGAGATGTACAGCGTCATCATGACTGTTAAGGAGAAGCAGTTCCCAGCCCTGGGCCTGGATCCCTGCCTCTTGGAGGATGAGCTGGACAAGGCTTTTGGATGA
Peptide sequence:
MPKNSKVTQREHSNEHVTESVADLLALEEPVDYKQSVLNVAGETGGKQKVAEEELDTEDRPAWNSKLQYILAQIGFSVGLGNIWRFPYLCQKNGGGAYLVPYLVLLIIIGIPLFFLELAVGQRIRRGSIGVWHYVCPRLGGIGFSSCIVCLFVGLYYNVIIGWSVFYFFKSFQYPLPWSECPVIRNGTVAVVEPECEKSSATTYFWYREALDISNSISESGGLNWKMTLCLLVAWSIVGMAVVKGIQSSGKVMYFSSLFPYVVLACFLVRGLLLRGAVDGILHMFTPKLDKMLDPQVWREAATQVFFALGLGFGGVIAFSSYNKQDNNCHFDAALVSFINFFTSVLATLVVFAVLGFKANIMNEKCVVENAEKILGYLNSNVLSRDLIPPHVNFSHLTTKDYSEMYSVIMTVKEKQFPALGLDPCLLEDELDKAFG
IRESfinder result
IRESfinder score
0.486563473
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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