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mmu_circSlc12a6_847
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc12a6_847
mm39_Chr. Position ID:
chr2|112146585|112169832|+
Gene name:
Slc12a6
Transcript:
ENSMUST00000110991.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
2,3,4,5,6,7,8
Exon/intron offsets:
0,17142,18128,19535,21117,21618,23005
Genomic length:
23247
Exon/intron sizes in nt:
4,59,51,32,14,75,51,31,000
Flanking exon/introns:
chr2:112097437-112146585|chr2:112169832-112172175
Splice length:
847
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ACCCGAGTCAGAACTCCATCACAGGGGAGCACAGCCAGCTGTTAGATGACGGCCATAAAAAAGCCCGAAATGCTTATCTCAATAATTCCAACTATGAAGAAGGAGACGAATATTTTGATAAAAATTTGGCACTCTTTGAGGAAGAAATGGACACCAGACCAAAGGTGTCTTCTCTCCTCAACCGCATGGCCAACTATACAAATCTGACACAAGGAGCAAAGGAACATGAAGAGGCAGAGAACATCACTGAAGGGAAAAAGAAGCCTACCAAGAGCCCCCAAATGGGTACTTTCATGGGTGTCTACCTCCCATGTCTACAGAACATCTTTGGAGTGATCCTCTTCCTGCGTCTTACCTGGGTAGTGGGAACAGCTGGAATCCTTCAGGCCTTTGCAATTGTCCTCATCTGCTGCTGCTGTACAATGTTAACTGCCATCTCCATGAGCGCCATCGCCACTAACGGAGTGGTGCCAGCTGGGGGCTCATACTTCATGATTTCCAGAGCCCTGGGCCCAGAGTTTGGCGGGGCTGTAGGCCTCTGCTTTTATCTTGGCACCACATTTGCAGCAGCCATGTATATTCTTGGTGCCATTGAAATCTTTCTGGTATACATTGTCCCCCGAGCTGCCATCTTTCGGAGTGACGATGCACTCAAGGAGTCAGCAGCTATGCTGAACAACATGCGCGTCTATGGTACAGCCTTCTTGGTCCTCATGGTCTTGGTGGTATTCATCGGCGTACGCTATGTGAATAAGTTTGCCTCACTCTTCCTGGCCTGTGTAATTGTGTCGATCTTGGCTATCTATGCTGGTGCCATCAAGTCTTCCTTTGCTCCACCACACTTCCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCACTCTTCCTGGCCTGTG
60.04
TGGCCGTCATCTAACAGCTG
60.11
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGCCTCACTCTTCCTGGC
60.25
TGGCCGTCATCTAACAGCTG
60.11
147
PCR template sequence:
TGAATAAGTTTGCCTCACTCTTCCTGGCCTGTGTAATTGTGTCGATCTTGGCTATCTATGCTGGTGCCATCAAGTCTTCCTTTGCTCCACCACACTTCCCACCCGAGTCAGAACTCCATCACAGGGGAGCACAGCCAGCTGTTAGATGACGGCCATAAAAAAGCCCGAAATGCTTATCTCAATAATTCCAACTATGAAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-183-5p(2), mmu-miR-15a-5p(1), mmu-miR-7b-5p(1), mmu-miR-15b-5p(1), mmu-miR-7a-5p(1), mmu-miR-326-3p(1), mmu-miR-185-5p(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CACCACACTTCCCACCCGAGTCAGAA
siRNA sets
TCGGGTGGGAAGTGTGGTG, ACTCGGGTGGGAAGTGTGG, TGACTCGGGTGGGAAGTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC12A6_847_ORF_1
1.0855
0.260687057
0.985369053
888
ORF sequence:
ATGCTGGTGCCATCAAGTCTTCCTTTGCTCCACCACACTTCCCACCCGAGTCAGAACTCCATCACAGGGGAGCACAGCCAGCTGTTAGATGACGGCCATAAAAAAGCCCGAAATGCTTATCTCAATAATTCCAACTATGAAGAAGGAGACGAATATTTTGATAAAAATTTGGCACTCTTTGAGGAAGAAATGGACACCAGACCAAAGGTGTCTTCTCTCCTCAACCGCATGGCCAACTATACAAATCTGACACAAGGAGCAAAGGAACATGAAGAGGCAGAGAACATCACTGAAGGGAAAAAGAAGCCTACCAAGAGCCCCCAAATGGGTACTTTCATGGGTGTCTACCTCCCATGTCTACAGAACATCTTTGGAGTGATCCTCTTCCTGCGTCTTACCTGGGTAGTGGGAACAGCTGGAATCCTTCAGGCCTTTGCAATTGTCCTCATCTGCTGCTGCTGTACAATGTTAACTGCCATCTCCATGAGCGCCATCGCCACTAACGGAGTGGTGCCAGCTGGGGGCTCATACTTCATGATTTCCAGAGCCCTGGGCCCAGAGTTTGGCGGGGCTGTAGGCCTCTGCTTTTATCTTGGCACCACATTTGCAGCAGCCATGTATATTCTTGGTGCCATTGAAATCTTTCTGGTATACATTGTCCCCCGAGCTGCCATCTTTCGGAGTGACGATGCACTCAAGGAGTCAGCAGCTATGCTGAACAACATGCGCGTCTATGGTACAGCCTTCTTGGTCCTCATGGTCTTGGTGGTATTCATCGGCGTACGCTATGTGAATAAGTTTGCCTCACTCTTCCTGGCCTGTGTAATTGTGTCGATCTTGGCTATCTATGCTGGTGCCATCAAGTCTTCCTTTGCTCCACCACACTTC
Peptide sequence:
MLVPSSLPLLHHTSHPSQNSITGEHSQLLDDGHKKARNAYLNNSNYEEGDEYFDKNLALFEEEMDTRPKVSSLLNRMANYTNLTQGAKEHEEAENITEGKKKPTKSPQMGTFMGVYLPCLQNIFGVILFLRLTWVVGTAGILQAFAIVLICCCCTMLTAISMSAIATNGVVPAGGSYFMISRALGPEFGGAVGLCFYLGTTFAAAMYILGAIEIFLVYIVPRAAIFRSDDALKESAAMLNNMRVYGTAFLVLMVLVVFIGVRYVNKFASLFLACVIVSILAIYAGAIKSSFAPPHF
IRESfinder result
IRESfinder score
0.570952713
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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