General information for g12496.t42
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.t42 | TTS | g12496.t42 | 24005029 | 24005029 |
| chr_1 | g12496 | g12496.t42 | isoform | g12496.t42 | 24005243 | 24007016 |
| chr_1 | g12496 | g12496.t42 | exon | g12496.t42.exon1 | 24005243 | 24005475 |
| chr_1 | g12496 | g12496.t42 | cds | g12496.t42.CDS1 | 24005243 | 24005475 |
| chr_1 | g12496 | g12496.t42 | exon | g12496.t42.exon2 | 24005584 | 24006021 |
| chr_1 | g12496 | g12496.t42 | cds | g12496.t42.CDS2 | 24005584 | 24006021 |
| chr_1 | g12496 | g12496.t42 | exon | g12496.t42.exon3 | 24006836 | 24007016 |
| chr_1 | g12496 | g12496.t42 | cds | g12496.t42.CDS3 | 24006836 | 24007016 |
| chr_1 | g12496 | g12496.t42 | TSS | g12496.t42 | 24007159 | 24007159 |
Sequences
>g12496.t42 Gene=g12496 Length=852
ATGTCTAATATTGAAAATCACAGTGATAAAGTTGAATATAATGATAATGGTGCAGTTCAA
AAAGTGACAGTGAATGTTTCTTCTTTATTGCCTCATTTGGAATCAATTGATCGCTTACTC
TCCATACCAGTTTGCTCAATTGCATTTAACCAGAGTCAATCAGTTTATGGAAAAGTAAAA
GATTTTAATCCTATGTTCAATTGGGCTTTTCGTACAGCTGAAGACGTTGTAAAAGGAGCA
GTTACAATTTCAGCTCCAATTGTCAATAAATTTGATAAACCAATCAATTTTGTTGATCAA
ACATTGGTAAAAGGGATTGATAAACTCGAAGCATCTGCACCAATCATTAAGGAACAACCT
GGAGAAATTTTGAGTCAAGCTAAAACAAGAGTAATAGGAGTTGTGCAACCAAGAATTGAT
AGAGTTTGTGAATTTAGAAGAGCGAGTACAGAGAAAGCGGCTTCATTGAAGGAATTATCG
TACAATAAAGCAAACGAAGTACTCGCAACACATTATGGTGCATTAGCAGTTTCAGGTTTT
GACTCAACAGCAGCGCTCGCTGAACGTCTCTTGGACACATTCTTTCCAAAGAATGAAGAA
GATGATAAAGATGATGACATACAAACTATTGGTGCACTTTCGAATAAAGTAGCTCGTCGC
GTCTATAGAACTGTTTCTCGACAAGTCAAGCAACTGAAGAAAGAAGATCTTGCCGAATAC
CTTGCCTCACTTATTGCTGTCCTTCGACTTACTCAATACCTTAATATCATCAACAAATCC
AATTTATTTCAACAACAACCACAACAGTCGAACTCAAACGGAACAGCTATAGTGAAAGTT
GATGCTAAATGA
>g12496.t42 Gene=g12496 Length=283
MSNIENHSDKVEYNDNGAVQKVTVNVSSLLPHLESIDRLLSIPVCSIAFNQSQSVYGKVK
DFNPMFNWAFRTAEDVVKGAVTISAPIVNKFDKPINFVDQTLVKGIDKLEASAPIIKEQP
GEILSQAKTRVIGVVQPRIDRVCEFRRASTEKAASLKELSYNKANEVLATHYGALAVSGF
DSTAALAERLLDTFFPKNEEDDKDDDIQTIGALSNKVARRVYRTVSRQVKQLKKEDLAEY
LASLIAVLRLTQYLNIINKSNLFQQQPQQSNSNGTAIVKVDAK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g12496.t42 | Coils | Coil | Coil | 215 | 235 | - |
| 3 | g12496.t42 | PANTHER | PTHR14024 | PERILIPIN | 23 | 206 | 1.2E-105 |
| 5 | g12496.t42 | PANTHER | PTHR14024:SF50 | LIPID STORAGE DROPLETS SURFACE-BINDING PROTEIN 2 | 23 | 206 | 1.2E-105 |
| 2 | g12496.t42 | PANTHER | PTHR14024 | PERILIPIN | 207 | 262 | 1.2E-105 |
| 4 | g12496.t42 | PANTHER | PTHR14024:SF50 | LIPID STORAGE DROPLETS SURFACE-BINDING PROTEIN 2 | 207 | 262 | 1.2E-105 |
| 7 | g12496.t42 | PIRSF | PIRSF036881 | PAT | 13 | 273 | 9.1E-45 |
| 1 | g12496.t42 | Pfam | PF03036 | Perilipin family | 35 | 255 | 7.9E-22 |
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. There were no conditions that were differentially expressed