General information for g12496.t28
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.t28 | isoform | g12496.t28 | 24005025 | 24007016 |
| chr_1 | g12496 | g12496.t28 | exon | g12496.t28.exon1 | 24005025 | 24005514 |
| chr_1 | g12496 | g12496.t28 | TTS | g12496.t28 | 24005029 | 24005029 |
| chr_1 | g12496 | g12496.t28 | cds | g12496.t28.CDS1 | 24005243 | 24005514 |
| chr_1 | g12496 | g12496.t28 | exon | g12496.t28.exon2 | 24005584 | 24006021 |
| chr_1 | g12496 | g12496.t28 | cds | g12496.t28.CDS2 | 24005584 | 24006010 |
| chr_1 | g12496 | g12496.t28 | exon | g12496.t28.exon3 | 24006832 | 24007016 |
| chr_1 | g12496 | g12496.t28 | TSS | g12496.t28 | 24007159 | 24007159 |
Sequences
>g12496.t28 Gene=g12496 Length=1113
ATGTCTAATATTGAAAATCACAGTGATAAAGTTGAATATAATGATAATGGTGCAGTTCAA
AAAGTGACAGTGAATGTTTCTTCTTTATTGCCTCATTTGGAATCAATTGATCGCTTACTC
TCCATACCAGTTTGCTCAATTGCATTTAACCAGAGTCAATCAGTTTATGGAAAAGTAAAA
GGTGAATTTTAATCCTATGTTCAATTGGGCTTTTCGTACAGCTGAAGACGTTGTAAAAGG
AGCAGTTACAATTTCAGCTCCAATTGTCAATAAATTTGATAAACCAATCAATTTTGTTGA
TCAAACATTGGTAAAAGGGATTGATAAACTCGAAGCATCTGCACCAATCATTAAGGAACA
ACCTGGAGAAATTTTGAGTCAAGCTAAAACAAGAGTAATAGGAGTTGTGCAACCAAGAAT
TGATAGAGTTTGTGAATTTAGAAGAGCGAGTACAGAGAAAGCGGCTTCATTGAAGGAATT
ATCGTACAATAAAGCAAACGAAGTACTCGCAACACATTATGGTGCATTAGCAGTTTCAGG
TTTTGACTCAACAGCAGCGCTCGCTGAACGTCTCTTGGACACATTCTTTCCAAAGAATGA
AGAAGATGATAAAGATGATGACAAACCAATCTCTGCAACTGAAGACCCAGTCTTGCATTC
AGTACAAACTATTGGTGCACTTTCGAATAAAGTAGCTCGTCGCGTCTATAGAACTGTTTC
TCGACAAGTCAAGCAACTGAAGAAAGAAGATCTTGCCGAATACCTTGCCTCACTTATTGC
TGTCCTTCGACTTACTCAATACCTTAATATCATCAACAAATCCAATTTATTTCAACAACA
ACCACAACAGTCGAACTCAAACGGAACAGCTATAGTGAAAGTTGATGCTAAATGAATAAC
ATCGAATCTATTACTCAGGAGACATTTTTTCTTTCTTCTCTATACATAATTTTTATTTAA
GCTAAGCTAATCCAGTGGAGAATAATTGAAATTTTTGTTTTTATATGTATGTCATCTATT
GTTTTTTTGGGGAATATTTTTGTTACATTTATTGGCAGCAATTGAAATGTTGCTAAAAAT
TGTTTAATAAATTCTTTTTGATAAAAATTAAAA
>g12496.t28 Gene=g12496 Length=232
MFNWAFRTAEDVVKGAVTISAPIVNKFDKPINFVDQTLVKGIDKLEASAPIIKEQPGEIL
SQAKTRVIGVVQPRIDRVCEFRRASTEKAASLKELSYNKANEVLATHYGALAVSGFDSTA
ALAERLLDTFFPKNEEDDKDDDKPISATEDPVLHSVQTIGALSNKVARRVYRTVSRQVKQ
LKKEDLAEYLASLIAVLRLTQYLNIINKSNLFQQQPQQSNSNGTAIVKVDAK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g12496.t28 | Coils | Coil | Coil | 164 | 184 | - |
| 2 | g12496.t28 | PANTHER | PTHR14024 | PERILIPIN | 1 | 212 | 7.4E-96 |
| 3 | g12496.t28 | PANTHER | PTHR14024:SF50 | LIPID STORAGE DROPLETS SURFACE-BINDING PROTEIN 2 | 1 | 212 | 7.4E-96 |
| 1 | g12496.t28 | 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.
