General information for g12496.t48
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Lipid storage droplets surface-binding protein 2.
Parent gene
- The parent gene g12496 is located on chr_1: 24006078..24014951 (- strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_1 | g12496 | g12496.t48 | TTS | g12496.t48 | 24005029 | 24005029 |
| chr_1 | g12496 | g12496.t48 | isoform | g12496.t48 | 24005243 | 24007016 |
| chr_1 | g12496 | g12496.t48 | exon | g12496.t48.exon1 | 24005243 | 24005514 |
| chr_1 | g12496 | g12496.t48 | cds | g12496.t48.CDS1 | 24005243 | 24005514 |
| chr_1 | g12496 | g12496.t48 | exon | g12496.t48.exon2 | 24005584 | 24006021 |
| chr_1 | g12496 | g12496.t48 | cds | g12496.t48.CDS2 | 24005584 | 24006021 |
| chr_1 | g12496 | g12496.t48 | exon | g12496.t48.exon3 | 24006863 | 24007016 |
| chr_1 | g12496 | g12496.t48 | cds | g12496.t48.CDS3 | 24006863 | 24007016 |
| chr_1 | g12496 | g12496.t48 | TSS | g12496.t48 | 24007159 | 24007159 |
Sequences
>g12496.t48 Gene=g12496 Length=864
ATGTCTAATATTGAAAATCACAGTGATAAAGTTGAATATAATGATAATGGTGCAGTTCAA
AAAGTGACAGTGAATGTTTCTTCTTTATTGCCTCATTTGGAATCAATTGATCGCTTACTC
TCCATACCAGTTTGCTCAATTGCATTTAACCAGAATTTTAATCCTATGTTCAATTGGGCT
TTTCGTACAGCTGAAGACGTTGTAAAAGGAGCAGTTACAATTTCAGCTCCAATTGTCAAT
AAATTTGATAAACCAATCAATTTTGTTGATCAAACATTGGTAAAAGGGATTGATAAACTC
GAAGCATCTGCACCAATCATTAAGGAACAACCTGGAGAAATTTTGAGTCAAGCTAAAACA
AGAGTAATAGGAGTTGTGCAACCAAGAATTGATAGAGTTTGTGAATTTAGAAGAGCGAGT
ACAGAGAAAGCGGCTTCATTGAAGGAATTATCGTACAATAAAGCAAACGAAGTACTCGCA
ACACATTATGGTGCATTAGCAGTTTCAGGTTTTGACTCAACAGCAGCGCTCGCTGAACGT
CTCTTGGACACATTCTTTCCAAAGAATGAAGAAGATGATAAAGATGATGACAAACCAATC
TCTGCAACTGAAGACCCAGTCTTGCATTCAGTACAAACTATTGGTGCACTTTCGAATAAA
GTAGCTCGTCGCGTCTATAGAACTGTTTCTCGACAAGTCAAGCAACTGAAGAAAGAAGAT
CTTGCCGAATACCTTGCCTCACTTATTGCTGTCCTTCGACTTACTCAATACCTTAATATC
ATCAACAAATCCAATTTATTTCAACAACAACCACAACAGTCGAACTCAAACGGAACAGCT
ATAGTGAAAGTTGATGCTAAATGA
>g12496.t48 Gene=g12496 Length=287
MSNIENHSDKVEYNDNGAVQKVTVNVSSLLPHLESIDRLLSIPVCSIAFNQNFNPMFNWA
FRTAEDVVKGAVTISAPIVNKFDKPINFVDQTLVKGIDKLEASAPIIKEQPGEILSQAKT
RVIGVVQPRIDRVCEFRRASTEKAASLKELSYNKANEVLATHYGALAVSGFDSTAALAER
LLDTFFPKNEEDDKDDDKPISATEDPVLHSVQTIGALSNKVARRVYRTVSRQVKQLKKED
LAEYLASLIAVLRLTQYLNIINKSNLFQQQPQQSNSNGTAIVKVDAK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g12496.t48 | Coils | Coil | Coil | 219 | 239 | - |
| 2 | g12496.t48 | PANTHER | PTHR14024 | PERILIPIN | 23 | 266 | 6.1E-103 |
| 3 | g12496.t48 | PANTHER | PTHR14024:SF50 | LIPID STORAGE DROPLETS SURFACE-BINDING PROTEIN 2 | 23 | 266 | 6.1E-103 |
| 5 | g12496.t48 | PIRSF | PIRSF036881 | PAT | 13 | 277 | 6.8E-38 |
| 1 | g12496.t48 | Pfam | PF03036 | Perilipin family | 57 | 260 | 3.5E-19 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
