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mmu_circSlc6a17_951_1
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc6a17_951_1
mm39_Chr. Position ID:
chr3|107379351|107384734|-
Gene name:
Slc6a17
Transcript:
ENSMUST00000169449.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
11,10,9,8,7
Exon/intron offsets:
0,1500,2236,4692,5141
Genomic length:
5383
Exon/intron sizes in nt:
16,31,60,19,31,93,242
Flanking exon/introns:
chr3:107378865-107379351|chr3:107384734-107398735
Splice length:
951
Other database IDs:
circAtlas: mmu-Slc6a17_0013
Human Ortholog IDs:
Mature spliced Sequence:
CTGGACAAGATGCTGGACCCCCAGGTGTGGCGGGAGGCAGCCACACAGGTCTTCTTCGCCCTGGGGCTGGGCTTTGGAGGCGTCATCGCCTTTTCCAGCTACAACAAACAGGACAATAACTGCCACTTCGATGCTGCCCTGGTGTCCTTCATCAACTTCTTCACCTCGGTGTTGGCCACCCTCGTGGTGTTTGCTGTGCTGGGCTTCAAAGCCAACATCATGAATGAGAAGTGTGTGGTCGAGAATGCTGAGAAAATTCTAGGGTACCTCAACTCCAATGTCTTGAGCCGGGACCTCATCCCACCTCACGTCAACTTCTCACACCTGACTACCAAGGACTACTCAGAGATGTACAGCGTCATCATGACTGTTAAGGAGAAGCAGTTCCCAGCCCTGGGCCTGGATCCCTGCCTCTTGGAGGATGAGCTGGACAAGTCTGTGCAGGGCACAGGCCTGGCCTTCATCGCCTTCACTGAGGCCATGACACATTTCCCGGCCTCCCCGTTCTGGTCCGTCATGTTCTTCTTGATGCTCATCAACCTGGGCCTGGGCAGCATGATCGGGACCATGGCAGGAATCACCACACCCATCATCGACACCTTCAAGGTGCCCAAGGAGATGTTCACAGTTGGCTGCTGTGTCTTTGCATTCTTCGTGGGGCTGTTGTTCGTCCAGCGCTCCGGAAACTACTTTGTCACCATGTTTGATGACTATTCGGCCACCCTGCCACTCACCGTCATCGTCATCCTTGAGAACATCGCTGTGGCCTGGATTTATGGAACCAAGAAGTTTATGCAGGAGCTGACAGAGATGCTGGGCTTCCAGCCGTATCGATTCTATTTCTACATGTGGAAGTTTGTGTCTCCACTGTGCATGGCTGTGCTCACCACAGCCAGCATCATCCAGCTGGGGGTGTCGCCCCCAGGCTACAGTGCCTGGATCAAAGAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGTCTCCACTGTGCATGG
60.25
CGAAGAAGACCTGTGTGGCT
59.97
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGTCTCCACTGTGCATGG
60.25
AAGAAGACCTGTGTGGCTGC
60.54
150
PCR template sequence:
GAAGTTTGTGTCTCCACTGTGCATGGCTGTGCTCACCACAGCCAGCATCATCCAGCTGGGGGTGTCGCCCCCAGGCTACAGTGCCTGGATCAAAGAGGAGCTGGACAAGATGCTGGACCCCCAGGTGTGGCGGGAGGCAGCCACACAGGTCTTCTTCGCCCTGGGGCTGGGCTTTGGAGGCGTCATCGCCTTTTCCAGCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-709(1), mmu-miR-433-3p(1), mmu-miR-362-5p(1), mmu-miR-107-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GATCAAAGAGGAGCTGGACAAGATGC
siRNA sets
CATCTTGTCCAGCTCCTCT, CTTGTCCAGCTCCTCTTTG, TTGTCCAGCTCCTCTTTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC6A17_951_1_ORF_1
1.3368
0.514856136
0.999997657
1893
ORF sequence:
ATGCTGGACCCCCAGGTGTGGCGGGAGGCAGCCACACAGGTCTTCTTCGCCCTGGGGCTGGGCTTTGGAGGCGTCATCGCCTTTTCCAGCTACAACAAACAGGACAATAACTGCCACTTCGATGCTGCCCTGGTGTCCTTCATCAACTTCTTCACCTCGGTGTTGGCCACCCTCGTGGTGTTTGCTGTGCTGGGCTTCAAAGCCAACATCATGAATGAGAAGTGTGTGGTCGAGAATGCTGAGAAAATTCTAGGGTACCTCAACTCCAATGTCTTGAGCCGGGACCTCATCCCACCTCACGTCAACTTCTCACACCTGACTACCAAGGACTACTCAGAGATGTACAGCGTCATCATGACTGTTAAGGAGAAGCAGTTCCCAGCCCTGGGCCTGGATCCCTGCCTCTTGGAGGATGAGCTGGACAAGTCTGTGCAGGGCACAGGCCTGGCCTTCATCGCCTTCACTGAGGCCATGACACATTTCCCGGCCTCCCCGTTCTGGTCCGTCATGTTCTTCTTGATGCTCATCAACCTGGGCCTGGGCAGCATGATCGGGACCATGGCAGGAATCACCACACCCATCATCGACACCTTCAAGGTGCCCAAGGAGATGTTCACAGTTGGCTGCTGTGTCTTTGCATTCTTCGTGGGGCTGTTGTTCGTCCAGCGCTCCGGAAACTACTTTGTCACCATGTTTGATGACTATTCGGCCACCCTGCCACTCACCGTCATCGTCATCCTTGAGAACATCGCTGTGGCCTGGATTTATGGAACCAAGAAGTTTATGCAGGAGCTGACAGAGATGCTGGGCTTCCAGCCGTATCGATTCTATTTCTACATGTGGAAGTTTGTGTCTCCACTGTGCATGGCTGTGCTCACCACAGCCAGCATCATCCAGCTGGGGGTGTCGCCCCCAGGCTACAGTGCCTGGATCAAAGAGGAGCTGGACAAGATGCTGGACCCCCAGGTGTGGCGGGAGGCAGCCACACAGGTCTTCTTCGCCCTGGGGCTGGGCTTTGGAGGCGTCATCGCCTTTTCCAGCTACAACAAACAGGACAATAACTGCCACTTCGATGCTGCCCTGGTGTCCTTCATCAACTTCTTCACCTCGGTGTTGGCCACCCTCGTGGTGTTTGCTGTGCTGGGCTTCAAAGCCAACATCATGAATGAGAAGTGTGTGGTCGAGAATGCTGAGAAAATTCTAGGGTACCTCAACTCCAATGTCTTGAGCCGGGACCTCATCCCACCTCACGTCAACTTCTCACACCTGACTACCAAGGACTACTCAGAGATGTACAGCGTCATCATGACTGTTAAGGAGAAGCAGTTCCCAGCCCTGGGCCTGGATCCCTGCCTCTTGGAGGATGAGCTGGACAAGTCTGTGCAGGGCACAGGCCTGGCCTTCATCGCCTTCACTGAGGCCATGACACATTTCCCGGCCTCCCCGTTCTGGTCCGTCATGTTCTTCTTGATGCTCATCAACCTGGGCCTGGGCAGCATGATCGGGACCATGGCAGGAATCACCACACCCATCATCGACACCTTCAAGGTGCCCAAGGAGATGTTCACAGTTGGCTGCTGTGTCTTTGCATTCTTCGTGGGGCTGTTGTTCGTCCAGCGCTCCGGAAACTACTTTGTCACCATGTTTGATGACTATTCGGCCACCCTGCCACTCACCGTCATCGTCATCCTTGAGAACATCGCTGTGGCCTGGATTTATGGAACCAAGAAGTTTATGCAGGAGCTGACAGAGATGCTGGGCTTCCAGCCGTATCGATTCTATTTCTACATGTGGAAGTTTGTGTCTCCACTGTGCATGGCTGTGCTCACCACAGCCAGCATCATCCAGCTGGGGGTGTCGCCCCCAGGCTACAGTGCCTGGATCAAAGAGGAG
Peptide sequence:
MLDPQVWREAATQVFFALGLGFGGVIAFSSYNKQDNNCHFDAALVSFINFFTSVLATLVVFAVLGFKANIMNEKCVVENAEKILGYLNSNVLSRDLIPPHVNFSHLTTKDYSEMYSVIMTVKEKQFPALGLDPCLLEDELDKSVQGTGLAFIAFTEAMTHFPASPFWSVMFFLMLINLGLGSMIGTMAGITTPIIDTFKVPKEMFTVGCCVFAFFVGLLFVQRSGNYFVTMFDDYSATLPLTVIVILENIAVAWIYGTKKFMQELTEMLGFQPYRFYFYMWKFVSPLCMAVLTTASIIQLGVSPPGYSAWIKEELDKMLDPQVWREAATQVFFALGLGFGGVIAFSSYNKQDNNCHFDAALVSFINFFTSVLATLVVFAVLGFKANIMNEKCVVENAEKILGYLNSNVLSRDLIPPHVNFSHLTTKDYSEMYSVIMTVKEKQFPALGLDPCLLEDELDKSVQGTGLAFIAFTEAMTHFPASPFWSVMFFLMLINLGLGSMIGTMAGITTPIIDTFKVPKEMFTVGCCVFAFFVGLLFVQRSGNYFVTMFDDYSATLPLTVIVILENIAVAWIYGTKKFMQELTEMLGFQPYRFYFYMWKFVSPLCMAVLTTASIIQLGVSPPGYSAWIKEE
IRESfinder result
IRESfinder score
0.463812418
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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