top of page
mmu_circSlc12a6_1627
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc12a6_1627
mm39_Chr. Position ID:
chr2|112163727|112177780|+
Gene name:
Slc12a6
Transcript:
ENSMUST00000110991.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
3,4,5,6,7,8,9,10,11,12,13,14
Exon/intron offsets:
0,986,2393,3975,4476,5863,8448,10446,10756,11105,13516,13934
Genomic length:
14053
Exon/intron sizes in nt:
9,51,32,14,75,51,31,24,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr2:112146630-112163727|chr2:112177780-112179620
Splice length:
1627
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATGACGGCCATAAAAAAGCCCGAAATGCTTATCTCAATAATTCCAACTATGAAGAAGGAGACGAATATTTTGATAAAAATTTGGCACTCTTTGAGGAAGAAATGGACACCAGACCAAAGGTGTCTTCTCTCCTCAACCGCATGGCCAACTATACAAATCTGACACAAGGAGCAAAGGAACATGAAGAGGCAGAGAACATCACTGAAGGGAAAAAGAAGCCTACCAAGAGCCCCCAAATGGGTACTTTCATGGGTGTCTACCTCCCATGTCTACAGAACATCTTTGGAGTGATCCTCTTCCTGCGTCTTACCTGGGTAGTGGGAACAGCTGGAATCCTTCAGGCCTTTGCAATTGTCCTCATCTGCTGCTGCTGTACAATGTTAACTGCCATCTCCATGAGCGCCATCGCCACTAACGGAGTGGTGCCAGCTGGGGGCTCATACTTCATGATTTCCAGAGCCCTGGGCCCAGAGTTTGGCGGGGCTGTAGGCCTCTGCTTTTATCTTGGCACCACATTTGCAGCAGCCATGTATATTCTTGGTGCCATTGAAATCTTTCTGGTATACATTGTCCCCCGAGCTGCCATCTTTCGGAGTGACGATGCACTCAAGGAGTCAGCAGCTATGCTGAACAACATGCGCGTCTATGGTACAGCCTTCTTGGTCCTCATGGTCTTGGTGGTATTCATCGGCGTACGCTATGTGAATAAGTTTGCCTCACTCTTCCTGGCCTGTGTAATTGTGTCGATCTTGGCTATCTATGCTGGTGCCATCAAGTCTTCCTTTGCTCCACCACACTTCCCGGTCTGTATGCTGGGCAACCGTACCCTGTCATCAAGACACCTTGACATTTGCTCTAAGACCAAGGAGGTTGACAACATGACAGTACCATCAAAGTTATGGGGATTCTTCTGCAACTCGAGTCAGTTCTTTAATGCCACCTGTGATGAGTACTTTGTTCACAATAACGTCATCTCAATCCAAGGCATTCCAGGGTTGGCTAGTGGTATCATTACTGAAAATCTTTGGAGTAATTATTTACCAAAGGGTGAGATAATTGAAAAGCCATCAGCCAAGTCATCTGATGTCTTAGGCAACTTAAACCATGAATATGTTCTTGCTGATATCACCACCTCCTTCACTCTGCTGGTGGGGATCTTCTTTCCCTCGGTCACAGGTATCATGGCTGGGTCAAACAGATCTGGAGATCTGAAAGATGCCCAGAAGTCTATTCCCATTGGGACCATCCTTGCCATCCTGACCACATCCTTTGTGTATTTAAGCAATGTTGTCCTTTTTGGTGCATGTATTGAAGGAGTCGTTCTCAGAGACAAATTTGGGGATGCTGTAAAAGGGAATTTGGTTGTAGGCACCTTATCCTGGCCATCCCCGTGGGTGATCGTTATTGGCTCCTTCTTTTCAACATGTGGGGCTGGGCTGCAGAGCCTCACAGGTGCGCCTCGGCTGCTGCAGGCTATCGCCAAGGATAACATCATACCTTTCCTTAGGGTTTTTGGTCACAGCAAAGCTAATGGGGAACCTACCTGGGCTTTACTTCTAACTGCTGCCATAGCAGAGCTGGGAATTCTCATCGCCTCCCTGGATCTCGTGGCCCCAATTCTTTCCAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCATAGCAGAGCTGGGAAT
59.89
TCTTCCTCAAAGAGTGCCAA
56.68
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGGGAATTCTCATCGCCT
60.18
TCTTCCTCAAAGAGTGCCAA
56.68
151
PCR template sequence:
CTAATGGGGAACCTACCTGGGCTTTACTTCTAACTGCTGCCATAGCAGAGCTGGGAATTCTCATCGCCTCCCTGGATCTCGTGGCCCCAATTCTTTCCATATGACGGCCATAAAAAAGCCCGAAATGCTTATCTCAATAATTCCAACTATGAAGAAGGAGACGAATATTTTGATAAAAATTTGGCACTCTTTGAGGAAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
Interacting miRNAs (#binding sites)
mmu-miR-183-5p(2), mmu-miR-137-3p(1), mmu-miR-20b-5p(1), mmu-miR-15a-5p(1), mmu-miR-106a-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-7b-5p(1), mmu-miR-135a-5p(1), mmu-miR-211-5p(1), mmu-miR-15b-5p(1), mmu-miR-18a-5p(1), mmu-miR-7a-5p(1), mmu-miR-326-3p(1), mmu-miR-185-5p(1), mmu-miR-136-5p(1), mmu-miR-501-3p(1), mmu-miR-532-5p(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAATTCTTTCCATATGACGGCCATAA
siRNA sets
ATGGCCGTCATATGGAAAG, TTATGGCCGTCATATGGAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC12A6_1627_ORF_1
1.1401
0.169760719
0.999803785
1530
ORF sequence:
ATGGACACCAGACCAAAGGTGTCTTCTCTCCTCAACCGCATGGCCAACTATACAAATCTGACACAAGGAGCAAAGGAACATGAAGAGGCAGAGAACATCACTGAAGGGAAAAAGAAGCCTACCAAGAGCCCCCAAATGGGTACTTTCATGGGTGTCTACCTCCCATGTCTACAGAACATCTTTGGAGTGATCCTCTTCCTGCGTCTTACCTGGGTAGTGGGAACAGCTGGAATCCTTCAGGCCTTTGCAATTGTCCTCATCTGCTGCTGCTGTACAATGTTAACTGCCATCTCCATGAGCGCCATCGCCACTAACGGAGTGGTGCCAGCTGGGGGCTCATACTTCATGATTTCCAGAGCCCTGGGCCCAGAGTTTGGCGGGGCTGTAGGCCTCTGCTTTTATCTTGGCACCACATTTGCAGCAGCCATGTATATTCTTGGTGCCATTGAAATCTTTCTGGTATACATTGTCCCCCGAGCTGCCATCTTTCGGAGTGACGATGCACTCAAGGAGTCAGCAGCTATGCTGAACAACATGCGCGTCTATGGTACAGCCTTCTTGGTCCTCATGGTCTTGGTGGTATTCATCGGCGTACGCTATGTGAATAAGTTTGCCTCACTCTTCCTGGCCTGTGTAATTGTGTCGATCTTGGCTATCTATGCTGGTGCCATCAAGTCTTCCTTTGCTCCACCACACTTCCCGGTCTGTATGCTGGGCAACCGTACCCTGTCATCAAGACACCTTGACATTTGCTCTAAGACCAAGGAGGTTGACAACATGACAGTACCATCAAAGTTATGGGGATTCTTCTGCAACTCGAGTCAGTTCTTTAATGCCACCTGTGATGAGTACTTTGTTCACAATAACGTCATCTCAATCCAAGGCATTCCAGGGTTGGCTAGTGGTATCATTACTGAAAATCTTTGGAGTAATTATTTACCAAAGGGTGAGATAATTGAAAAGCCATCAGCCAAGTCATCTGATGTCTTAGGCAACTTAAACCATGAATATGTTCTTGCTGATATCACCACCTCCTTCACTCTGCTGGTGGGGATCTTCTTTCCCTCGGTCACAGGTATCATGGCTGGGTCAAACAGATCTGGAGATCTGAAAGATGCCCAGAAGTCTATTCCCATTGGGACCATCCTTGCCATCCTGACCACATCCTTTGTGTATTTAAGCAATGTTGTCCTTTTTGGTGCATGTATTGAAGGAGTCGTTCTCAGAGACAAATTTGGGGATGCTGTAAAAGGGAATTTGGTTGTAGGCACCTTATCCTGGCCATCCCCGTGGGTGATCGTTATTGGCTCCTTCTTTTCAACATGTGGGGCTGGGCTGCAGAGCCTCACAGGTGCGCCTCGGCTGCTGCAGGCTATCGCCAAGGATAACATCATACCTTTCCTTAGGGTTTTTGGTCACAGCAAAGCTAATGGGGAACCTACCTGGGCTTTACTTCTAACTGCTGCCATAGCAGAGCTGGGAATTCTCATCGCCTCCCTGGATCTCGTGGCCCCAATTCTTTCCATATGA
Peptide sequence:
MDTRPKVSSLLNRMANYTNLTQGAKEHEEAENITEGKKKPTKSPQMGTFMGVYLPCLQNIFGVILFLRLTWVVGTAGILQAFAIVLICCCCTMLTAISMSAIATNGVVPAGGSYFMISRALGPEFGGAVGLCFYLGTTFAAAMYILGAIEIFLVYIVPRAAIFRSDDALKESAAMLNNMRVYGTAFLVLMVLVVFIGVRYVNKFASLFLACVIVSILAIYAGAIKSSFAPPHFPVCMLGNRTLSSRHLDICSKTKEVDNMTVPSKLWGFFCNSSQFFNATCDEYFVHNNVISIQGIPGLASGIITENLWSNYLPKGEIIEKPSAKSSDVLGNLNHEYVLADITTSFTLLVGIFFPSVTGIMAGSNRSGDLKDAQKSIPIGTILAILTTSFVYLSNVVLFGACIEGVVLRDKFGDAVKGNLVVGTLSWPSPWVIVIGSFFSTCGAGLQSLTGAPRLLQAIAKDNIIPFLRVFGHSKANGEPTWALLLTAAIAELGILIASLDLVAPILSI
IRESfinder result
IRESfinder score
0.635268624
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page