General information for g12496.t19
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.t19 | isoform | g12496.t19 | 24005025 | 24007016 |
| chr_1 | g12496 | g12496.t19 | exon | g12496.t19.exon1 | 24005025 | 24005514 |
| chr_1 | g12496 | g12496.t19 | TTS | g12496.t19 | 24005029 | 24005029 |
| chr_1 | g12496 | g12496.t19 | cds | g12496.t19.CDS1 | 24005243 | 24005514 |
| chr_1 | g12496 | g12496.t19 | exon | g12496.t19.exon2 | 24005584 | 24006048 |
| chr_1 | g12496 | g12496.t19 | cds | g12496.t19.CDS2 | 24005584 | 24006010 |
| chr_1 | g12496 | g12496.t19 | exon | g12496.t19.exon3 | 24006895 | 24007016 |
| chr_1 | g12496 | g12496.t19 | TSS | g12496.t19 | 24007159 | 24007159 |
Sequences
>g12496.t19 Gene=g12496 Length=1077
ATGTCTAATATTGAAAATCACAGTGATAAAGTTGAATATAATGATAATGGTGCAGTTCAA
AAAGTGACAGTGAATGTTTCTTCTTTATTGCCTCATTTGGAATCAATTGATCGCTTACTC
TCTAATTTAATAAATCTCAATTCTTTCAGATTTTAATCCTATGTTCAATTGGGCTTTTCG
TACAGCTGAAGACGTTGTAAAAGGAGCAGTTACAATTTCAGCTCCAATTGTCAATAAATT
TGATAAACCAATCAATTTTGTTGATCAAACATTGGTAAAAGGGATTGATAAACTCGAAGC
ATCTGCACCAATCATTAAGGAACAACCTGGAGAAATTTTGAGTCAAGCTAAAACAAGAGT
AATAGGAGTTGTGCAACCAAGAATTGATAGAGTTTGTGAATTTAGAAGAGCGAGTACAGA
GAAAGCGGCTTCATTGAAGGAATTATCGTACAATAAAGCAAACGAAGTACTCGCAACACA
TTATGGTGCATTAGCAGTTTCAGGTTTTGACTCAACAGCAGCGCTCGCTGAACGTCTCTT
GGACACATTCTTTCCAAAGAATGAAGAAGATGATAAAGATGATGACAAACCAATCTCTGC
AACTGAAGACCCAGTCTTGCATTCAGTACAAACTATTGGTGCACTTTCGAATAAAGTAGC
TCGTCGCGTCTATAGAACTGTTTCTCGACAAGTCAAGCAACTGAAGAAAGAAGATCTTGC
CGAATACCTTGCCTCACTTATTGCTGTCCTTCGACTTACTCAATACCTTAATATCATCAA
CAAATCCAATTTATTTCAACAACAACCACAACAGTCGAACTCAAACGGAACAGCTATAGT
GAAAGTTGATGCTAAATGAATAACATCGAATCTATTACTCAGGAGACATTTTTTCTTTCT
TCTCTATACATAATTTTTATTTAAGCTAAGCTAATCCAGTGGAGAATAATTGAAATTTTT
GTTTTTATATGTATGTCATCTATTGTTTTTTTGGGGAATATTTTTGTTACATTTATTGGC
AGCAATTGAAATGTTGCTAAAAATTGTTTAATAAATTCTTTTTGATAAAAATTAAAA
>g12496.t19 Gene=g12496 Length=232
MFNWAFRTAEDVVKGAVTISAPIVNKFDKPINFVDQTLVKGIDKLEASAPIIKEQPGEIL
SQAKTRVIGVVQPRIDRVCEFRRASTEKAASLKELSYNKANEVLATHYGALAVSGFDSTA
ALAERLLDTFFPKNEEDDKDDDKPISATEDPVLHSVQTIGALSNKVARRVYRTVSRQVKQ
LKKEDLAEYLASLIAVLRLTQYLNIINKSNLFQQQPQQSNSNGTAIVKVDAK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g12496.t19 | Coils | Coil | Coil | 164 | 184 | - |
| 2 | g12496.t19 | PANTHER | PTHR14024 | PERILIPIN | 1 | 212 | 7.4E-96 |
| 3 | g12496.t19 | PANTHER | PTHR14024:SF50 | LIPID STORAGE DROPLETS SURFACE-BINDING PROTEIN 2 | 1 | 212 | 7.4E-96 |
| 1 | g12496.t19 | Pfam | PF03036 | Perilipin family | 9 | 205 | 4.8E-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.
