top of page
mmu_circSlc9a8_726
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc9a8_726
mm39_Chr. Position ID:
chr2|167287425|167309687|+
Gene name:
Slc9a8
Transcript:
ENSMUST00000047815.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
6,7,8,9,10,11,12
Exon/intron offsets:
0,996,5701,11821,14143,19835,22179
Genomic length:
22262
Exon/intron sizes in nt:
102,35,144,139,106,117,83
Flanking exon/introns:
chr2:167285452-167287425|chr2:167309687-167310883
Splice length:
726
Other database IDs:
CIRCpedia: MMU_CIRCpedia_11691, circAtlas: mmu-Slc9a8_0013
circBase: hsa_circ_0007419, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_34667
Human Ortholog IDs:
Mature spliced Sequence:
GGGAACTTCTTTCAGAACATCGGTTCCATCACTCTCTTCGCTGTCTTTGGAACGGCAATCTCGGCTTTTGTAGTAGGTGGAGGAATTTACTTTCTGGGTCAGGCTGATGTAATCTCTAAACTCAACATGACAGACAGTTTCGCATTTGGCTCCCTGATATCTGCAGTCGACCCAGTCGCCACTATTGCGATTTTCAACGCACTGCATGTGGACCCTGTGCTCAACATGCTGGTGTTTGGAGAAAGCATTCTCAACGATGCAGTCTCCATCGTCCTCACCAACACGGCTGAAGGTCTAACAAGAAAACATATGTCAGATGTCAGTGGGTGGCAAACGTTCTCACAGGCCCTTGGCTACTTCCTCAAAATGTTCTTTGGCTCCGCAGCACTTGGCACGCTGACTGGCTTGATTTCAGCATTAGTGTTGAAGCACATTGACCTGAGGAAAACGCCTTCCCTGGAGTTTGGCATGATGATCATTTTTGCTTACCTGCCATATGGGCTGGCAGAAGGAATCTCACTCTCAGGCATCATGGCGATCCTGTTTTCTGGCATCGTGATGTCACACTATACACACCATAACCTCTCCCCAGTCACCCAGATCCTCATGCAGCAGACTCTCCGAACTGTGGCCTTCCTGTGTGAAACGTGTGTGTTTGCATTTCTTGGCCTCTCCATTTTTAGTTTCCCTCACAAGTTTGAAATTTCCTTTGTCATCTGGTGCATA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGCCTTCCTGTGTGAAA
59.74
CAAAAGCCGAGATTGCCGTT
59.76
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTTCCTGTGTGAAACGTG
59.69
CAAAAGCCGAGATTGCCGTT
59.76
166
PCR template sequence:
TGTGGCCTTCCTGTGTGAAACGTGTGTGTTTGCATTTCTTGGCCTCTCCATTTTTAGTTTCCCTCACAAGTTTGAAATTTCCTTTGTCATCTGGTGCATAGGGAACTTCTTTCAGAACATCGGTTCCATCACTCTCTTCGCTGTCTTTGGAACGGCAATCTCGGCTTTTGTAGTAGGTGGAGGAATTTACTTTCTGGGTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(1), mmu-miR-217-5p(1), mmu-miR-501-3p(1), mmu-miR-377-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATCTGGTGCATAGGGAACTTCTTTC
siRNA sets
AAAGAAGTTCCCTATGCAC, AAGAAGTTCCCTATGCACC, AGAAGTTCCCTATGCACCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC9A8_726_ORF_1
1.1823
0.19735505
0.999323143
1326
ORF sequence:
ATGACAGACAGTTTCGCATTTGGCTCCCTGATATCTGCAGTCGACCCAGTCGCCACTATTGCGATTTTCAACGCACTGCATGTGGACCCTGTGCTCAACATGCTGGTGTTTGGAGAAAGCATTCTCAACGATGCAGTCTCCATCGTCCTCACCAACACGGCTGAAGGTCTAACAAGAAAACATATGTCAGATGTCAGTGGGTGGCAAACGTTCTCACAGGCCCTTGGCTACTTCCTCAAAATGTTCTTTGGCTCCGCAGCACTTGGCACGCTGACTGGCTTGATTTCAGCATTAGTGTTGAAGCACATTGACCTGAGGAAAACGCCTTCCCTGGAGTTTGGCATGATGATCATTTTTGCTTACCTGCCATATGGGCTGGCAGAAGGAATCTCACTCTCAGGCATCATGGCGATCCTGTTTTCTGGCATCGTGATGTCACACTATACACACCATAACCTCTCCCCAGTCACCCAGATCCTCATGCAGCAGACTCTCCGAACTGTGGCCTTCCTGTGTGAAACGTGTGTGTTTGCATTTCTTGGCCTCTCCATTTTTAGTTTCCCTCACAAGTTTGAAATTTCCTTTGTCATCTGGTGCATAGGGAACTTCTTTCAGAACATCGGTTCCATCACTCTCTTCGCTGTCTTTGGAACGGCAATCTCGGCTTTTGTAGTAGGTGGAGGAATTTACTTTCTGGGTCAGGCTGATGTAATCTCTAAACTCAACATGACAGACAGTTTCGCATTTGGCTCCCTGATATCTGCAGTCGACCCAGTCGCCACTATTGCGATTTTCAACGCACTGCATGTGGACCCTGTGCTCAACATGCTGGTGTTTGGAGAAAGCATTCTCAACGATGCAGTCTCCATCGTCCTCACCAACACGGCTGAAGGTCTAACAAGAAAACATATGTCAGATGTCAGTGGGTGGCAAACGTTCTCACAGGCCCTTGGCTACTTCCTCAAAATGTTCTTTGGCTCCGCAGCACTTGGCACGCTGACTGGCTTGATTTCAGCATTAGTGTTGAAGCACATTGACCTGAGGAAAACGCCTTCCCTGGAGTTTGGCATGATGATCATTTTTGCTTACCTGCCATATGGGCTGGCAGAAGGAATCTCACTCTCAGGCATCATGGCGATCCTGTTTTCTGGCATCGTGATGTCACACTATACACACCATAACCTCTCCCCAGTCACCCAGATCCTCATGCAGCAGACTCTCCGAACTGTGGCCTTCCTGTGTGAAACGTGTGTGTTTGCATTTCTTGGCCTCTCCATTTTTAGTTTCCCTCACAAGTTTGAAATTTCCTTTGTCATCTGGTGCATA
Peptide sequence:
MTDSFAFGSLISAVDPVATIAIFNALHVDPVLNMLVFGESILNDAVSIVLTNTAEGLTRKHMSDVSGWQTFSQALGYFLKMFFGSAALGTLTGLISALVLKHIDLRKTPSLEFGMMIIFAYLPYGLAEGISLSGIMAILFSGIVMSHYTHHNLSPVTQILMQQTLRTVAFLCETCVFAFLGLSIFSFPHKFEISFVIWCIGNFFQNIGSITLFAVFGTAISAFVVGGGIYFLGQADVISKLNMTDSFAFGSLISAVDPVATIAIFNALHVDPVLNMLVFGESILNDAVSIVLTNTAEGLTRKHMSDVSGWQTFSQALGYFLKMFFGSAALGTLTGLISALVLKHIDLRKTPSLEFGMMIIFAYLPYGLAEGISLSGIMAILFSGIVMSHYTHHNLSPVTQILMQQTLRTVAFLCETCVFAFLGLSIFSFPHKFEISFVIWCI
IRESfinder result
IRESfinder score
0.659457215
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page