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mmu_circSlc4a1ap_751
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc4a1ap_751
mm39_Chr. Position ID:
chr5|31685386|31692271|+
Gene name:
Slc4a1ap
Transcript:
ENSMUST00000114533.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,2590,3930,4401,6002,6815
Genomic length:
6885
Exon/intron sizes in nt:
196,123,61,140,161,70
Flanking exon/introns:
chr5:31685028-31685386|chr5:31692271-31693481
Splice length:
751
Other database IDs:
circAtlas: mmu-Slc4a1ap_0016
circBase: hsa_circ_0053309
Human Ortholog IDs:
Mature spliced Sequence:
GGACCAGAGGAAGACCGAGAGGCAGAATCTGAATTAACAGTAACACAGTTGAAGGAATTGCGTAAACAGCAGCAGATATTATTGGAGAAGAAGATGTTAGGTGAAGACTCAGATGAAGAAGAAGAAGCAAATACCACTGAAGGGAAGAGCAGTAGAAGTGGTCAAGATGATGAGCTGGGCTGCACGTGGGGAATGGGAGAAGATGCTGTGGAGGATGAAGCTGAAGAGAACCCCATTGCCTTAGATTTTCAGCAGGACCGGGAAGCGTTTTATATAAAGGATCCAAAGAAGGCTCTTCAAGGCTTCTTTGACCGAGAAGGAGAAGAGTTAGAATATGAATTTGATGAGCAAGGACACAGCACTTGGCTCTGCAGGGTGAGGTTACCTGTAGATGATTCAACTGGGAAACAGCTGGTGGCTGAGGCCATTCACTCAGGAAAGAAAAAGGAAGCAATGGTACAGTGCTCGCTGGAAGCCTGCCGGGTCCTTGATACACTGGGCTTGCTACGGCAGGAAGCAGTATCTCGGAAAAGGAAAGCCAAGAACTGGGAAGATGAGGATTTTTATGATAGTGACGATGATACATTCCTCGATCGGACTGGCCTGGTAGAGAAGAAGCGCCTGAACCGGATGAAGAAGGCTGGGAAGCTTGATGAGAAGCCAGAAACTTTTGAGTCACTGGTTGCAAAGTTAAATGATGCCGAAAGGGAACTCGCCGAAATTTCTGAAAGGCTCAAGGCTTCAAGCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGTCACTGGTTGCAAAGT
57.58
TGCTGCTGTTTACGCAATTCC
60.07
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGTCACTGGTTGCAAAGT
57.58
GCTGCTGTTTACGCAATTCCT
59.8
153
PCR template sequence:
GATGAGAAGCCAGAAACTTTTGAGTCACTGGTTGCAAAGTTAAATGATGCCGAAAGGGAACTCGCCGAAATTTCTGAAAGGCTCAAGGCTTCAAGCAAAGGGACCAGAGGAAGACCGAGAGGCAGAATCTGAATTAACAGTAACACAGTTGAAGGAATTGCGTAAACAGCAGCAGATATTATTGGAGAAGAAGATGTTAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-207(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
GCTTCAAGCAAAGGGACCAGAGGAAG
siRNA sets
CTTCCTCTGGTCCCTTTGC, TTCCTCTGGTCCCTTTGCT, TGGTCCCTTTGCTTGAAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC4A1AP_751_ORF_1
0.9701
0.341419341
0.976916926
807
ORF sequence:
ATGATGCCGAAAGGGAACTCGCCGAAATTTCTGAAAGGCTCAAGGCTTCAAGCAAAGGGACCAGAGGAAGACCGAGAGGCAGAATCTGAATTAACAGTAACACAGTTGAAGGAATTGCGTAAACAGCAGCAGATATTATTGGAGAAGAAGATGTTAGGTGAAGACTCAGATGAAGAAGAAGAAGCAAATACCACTGAAGGGAAGAGCAGTAGAAGTGGTCAAGATGATGAGCTGGGCTGCACGTGGGGAATGGGAGAAGATGCTGTGGAGGATGAAGCTGAAGAGAACCCCATTGCCTTAGATTTTCAGCAGGACCGGGAAGCGTTTTATATAAAGGATCCAAAGAAGGCTCTTCAAGGCTTCTTTGACCGAGAAGGAGAAGAGTTAGAATATGAATTTGATGAGCAAGGACACAGCACTTGGCTCTGCAGGGTGAGGTTACCTGTAGATGATTCAACTGGGAAACAGCTGGTGGCTGAGGCCATTCACTCAGGAAAGAAAAAGGAAGCAATGGTACAGTGCTCGCTGGAAGCCTGCCGGGTCCTTGATACACTGGGCTTGCTACGGCAGGAAGCAGTATCTCGGAAAAGGAAAGCCAAGAACTGGGAAGATGAGGATTTTTATGATAGTGACGATGATACATTCCTCGATCGGACTGGCCTGGTAGAGAAGAAGCGCCTGAACCGGATGAAGAAGGCTGGGAAGCTTGATGAGAAGCCAGAAACTTTTGAGTCACTGGTTGCAAAGTTAAATGATGCCGAAAGGGAACTCGCCGAAATTTCTGAAAGGCTCAAGGCTTCAAGCAAA
Peptide sequence:
MMPKGNSPKFLKGSRLQAKGPEEDREAESELTVTQLKELRKQQQILLEKKMLGEDSDEEEEANTTEGKSSRSGQDDELGCTWGMGEDAVEDEAEENPIALDFQQDREAFYIKDPKKALQGFFDREGEELEYEFDEQGHSTWLCRVRLPVDDSTGKQLVAEAIHSGKKKEAMVQCSLEACRVLDTLGLLRQEAVSRKRKAKNWEDEDFYDSDDDTFLDRTGLVEKKRLNRMKKAGKLDEKPETFESLVAKLNDAERELAEISERLKASSK
IRESfinder result
IRESfinder score
0.356886421
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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