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mmu_circSlc12a2_440
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc12a2_440
mm39_Chr. Position ID:
chr18|58052527|58063306|+
Gene name:
Slc12a2
Transcript:
ENSMUST00000115366.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
16,17,18,19
Exon/intron offsets:
0,2290,6951,10699
Genomic length:
10779
Exon/intron sizes in nt:
112,141,107,80
Flanking exon/introns:
chr18:58048580-58052527|chr18:58063306-58065551
Splice length:
440
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ACCACAGTGCCTTGTAATGACAGGTTCTCCAAACTCACGGCCTGCTTTACTTCATCTTGTTCATGACTTCACGAAAAATGTTGGTTTAATGATCTGTGGCCATGTGCATATGGGCCCCAGAAGACAAGCTATGAAAGAGATGTCCATTGATCAAGCCAGATATCAGCGATGGCTCATTAAAAACAAAATGAAGGCTTTCTATGCTCCGGTTCACGCAGATGACTTGCGAGAAGGTGCACAATACTTGATGCAGGCTGCTGGACTTGGTCGTATGAAGCCAAACACACTTGTCCTGGGATTTAAGAAAGATTGGTTACAAGCCGATATGAGGGATGTGGATATGTATATAAACTTATTTCATGATGCTTTTGACATACAATTTGGAGTTGTGGTTATCCGCCTGAAGGAAGGACTGGATATATCACACCTCCAAGGTCAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGAGTTGTGGTTATCCGCC
60.04
GCCACAGATCATTAAACCAACA
57.22
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGAGTTGTGGTTATCCGCC
60.04
ACCAACATTTTTCGTGAAGTCA
57.03
144
PCR template sequence:
ATGTATATAAACTTATTTCATGATGCTTTTGACATACAATTTGGAGTTGTGGTTATCCGCCTGAAGGAAGGACTGGATATATCACACCTCCAAGGTCAGGACCACAGTGCCTTGTAATGACAGGTTCTCCAAACTCACGGCCTGCTTTACTTCATCTTGTTCATGACTTCACGAAAAATGTTGGTTTAATGATCTGTGGC
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-466d-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCCAAGGTCAGGACCACAGTGCCTT
siRNA sets
AGGCACTGTGGTCCTGACC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC12A2_440_ORF_1
1.063
0.047346074
0.522261679
441
ORF sequence:
ATGACAGGTTCTCCAAACTCACGGCCTGCTTTACTTCATCTTGTTCATGACTTCACGAAAAATGTTGGTTTAATGATCTGTGGCCATGTGCATATGGGCCCCAGAAGACAAGCTATGAAAGAGATGTCCATTGATCAAGCCAGATATCAGCGATGGCTCATTAAAAACAAAATGAAGGCTTTCTATGCTCCGGTTCACGCAGATGACTTGCGAGAAGGTGCACAATACTTGATGCAGGCTGCTGGACTTGGTCGTATGAAGCCAAACACACTTGTCCTGGGATTTAAGAAAGATTGGTTACAAGCCGATATGAGGGATGTGGATATGTATATAAACTTATTTCATGATGCTTTTGACATACAATTTGGAGTTGTGGTTATCCGCCTGAAGGAAGGACTGGATATATCACACCTCCAAGGTCAGGACCACAGTGCCTTGTAA
Peptide sequence:
MTGSPNSRPALLHLVHDFTKNVGLMICGHVHMGPRRQAMKEMSIDQARYQRWLIKNKMKAFYAPVHADDLREGAQYLMQAAGLGRMKPNTLVLGFKKDWLQADMRDVDMYINLFHDAFDIQFGVVVIRLKEGLDISHLQGQDHSAL
IRESfinder result
IRESfinder score
0.478187008
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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