General information for g12496.t3
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.t3 | isoform | g12496.t3 | 23999128 | 24007016 |
| chr_1 | g12496 | g12496.t3 | exon | g12496.t3.exon1 | 23999128 | 23999134 |
| chr_1 | g12496 | g12496.t3 | exon | g12496.t3.exon2 | 24005196 | 24005514 |
| chr_1 | g12496 | g12496.t3 | cds | g12496.t3.CDS1 | 24005243 | 24005514 |
| chr_1 | g12496 | g12496.t3 | exon | g12496.t3.exon3 | 24005584 | 24006021 |
| chr_1 | g12496 | g12496.t3 | cds | g12496.t3.CDS2 | 24005584 | 24006021 |
| chr_1 | g12496 | g12496.t3 | exon | g12496.t3.exon4 | 24006836 | 24007016 |
| chr_1 | g12496 | g12496.t3 | cds | g12496.t3.CDS3 | 24006836 | 24007016 |
| chr_1 | g12496 | g12496.t3 | TSS | g12496.t3 | 24007159 | 24007159 |
| chr_1 | g12496 | g12496.t3 | TTS | g12496.t3 | NA | NA |
Sequences
>g12496.t3 Gene=g12496 Length=945
ATGTCTAATATTGAAAATCACAGTGATAAAGTTGAATATAATGATAATGGTGCAGTTCAA
AAAGTGACAGTGAATGTTTCTTCTTTATTGCCTCATTTGGAATCAATTGATCGCTTACTC
TCCATACCAGTTTGCTCAATTGCATTTAACCAGAGTCAATCAGTTTATGGAAAAGTAAAA
GATTTTAATCCTATGTTCAATTGGGCTTTTCGTACAGCTGAAGACGTTGTAAAAGGAGCA
GTTACAATTTCAGCTCCAATTGTCAATAAATTTGATAAACCAATCAATTTTGTTGATCAA
ACATTGGTAAAAGGGATTGATAAACTCGAAGCATCTGCACCAATCATTAAGGAACAACCT
GGAGAAATTTTGAGTCAAGCTAAAACAAGAGTAATAGGAGTTGTGCAACCAAGAATTGAT
AGAGTTTGTGAATTTAGAAGAGCGAGTACAGAGAAAGCGGCTTCATTGAAGGAATTATCG
TACAATAAAGCAAACGAAGTACTCGCAACACATTATGGTGCATTAGCAGTTTCAGGTTTT
GACTCAACAGCAGCGCTCGCTGAACGTCTCTTGGACACATTCTTTCCAAAGAATGAAGAA
GATGATAAAGATGATGACAAACCAATCTCTGCAACTGAAGACCCAGTCTTGCATTCAGTA
CAAACTATTGGTGCACTTTCGAATAAAGTAGCTCGTCGCGTCTATAGAACTGTTTCTCGA
CAAGTCAAGCAACTGAAGAAAGAAGATCTTGCCGAATACCTTGCCTCACTTATTGCTGTC
CTTCGACTTACTCAATACCTTAATATCATCAACAAATCCAATTTATTTCAACAACAACCA
CAACAGTCGAACTCAAACGGAACAGCTATAGTGAAAGTTGATGCTAAATGAATAACATCG
AATCTATTACTCAGGAGACATTTTTTCTTTCTTCTCTAATAATTT
>g12496.t3 Gene=g12496 Length=296
MSNIENHSDKVEYNDNGAVQKVTVNVSSLLPHLESIDRLLSIPVCSIAFNQSQSVYGKVK
DFNPMFNWAFRTAEDVVKGAVTISAPIVNKFDKPINFVDQTLVKGIDKLEASAPIIKEQP
GEILSQAKTRVIGVVQPRIDRVCEFRRASTEKAASLKELSYNKANEVLATHYGALAVSGF
DSTAALAERLLDTFFPKNEEDDKDDDKPISATEDPVLHSVQTIGALSNKVARRVYRTVSR
QVKQLKKEDLAEYLASLIAVLRLTQYLNIINKSNLFQQQPQQSNSNGTAIVKVDAK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g12496.t3 | Coils | Coil | Coil | 228 | 248 | - |
| 2 | g12496.t3 | PANTHER | PTHR14024 | PERILIPIN | 23 | 275 | 1.8E-114 |
| 3 | g12496.t3 | PANTHER | PTHR14024:SF50 | LIPID STORAGE DROPLETS SURFACE-BINDING PROTEIN 2 | 23 | 275 | 1.8E-114 |
| 5 | g12496.t3 | PIRSF | PIRSF036881 | PAT | 13 | 286 | 2.0E-47 |
| 1 | g12496.t3 | Pfam | PF03036 | Perilipin family | 35 | 269 | 3.0E-26 |
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 transcript has been annotated with K17284 (perilipin-2)
Pathway
- This transcript belongs to the following pathways
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.
