General information for g12496.t16
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.t16 | isoform | g12496.t16 | 24005024 | 24007016 |
| chr_1 | g12496 | g12496.t16 | exon | g12496.t16.exon1 | 24005024 | 24005514 |
| chr_1 | g12496 | g12496.t16 | TTS | g12496.t16 | 24005029 | 24005029 |
| chr_1 | g12496 | g12496.t16 | cds | g12496.t16.CDS1 | 24005243 | 24005514 |
| chr_1 | g12496 | g12496.t16 | exon | g12496.t16.exon2 | 24005584 | 24006021 |
| chr_1 | g12496 | g12496.t16 | cds | g12496.t16.CDS2 | 24005584 | 24006021 |
| chr_1 | g12496 | g12496.t16 | exon | g12496.t16.exon3 | 24006871 | 24007016 |
| chr_1 | g12496 | g12496.t16 | cds | g12496.t16.CDS3 | 24006871 | 24006943 |
| chr_1 | g12496 | g12496.t16 | TSS | g12496.t16 | 24007159 | 24007159 |
Sequences
>g12496.t16 Gene=g12496 Length=1075
ATGTCTAATATTGAAAATCACAGTGATAAAGTTGAATATAATGATAATGGTGCAGTTCAA
AAAGTGACAGTGAATGTTTCTTCTTTATTGCCTCATTTGGAATCAATTGATCGCTTACTC
TCCATACCAGTTTGCTCAATTGCATTATTTTAATCCTATGTTCAATTGGGCTTTTCGTAC
AGCTGAAGACGTTGTAAAAGGAGCAGTTACAATTTCAGCTCCAATTGTCAATAAATTTGA
TAAACCAATCAATTTTGTTGATCAAACATTGGTAAAAGGGATTGATAAACTCGAAGCATC
TGCACCAATCATTAAGGAACAACCTGGAGAAATTTTGAGTCAAGCTAAAACAAGAGTAAT
AGGAGTTGTGCAACCAAGAATTGATAGAGTTTGTGAATTTAGAAGAGCGAGTACAGAGAA
AGCGGCTTCATTGAAGGAATTATCGTACAATAAAGCAAACGAAGTACTCGCAACACATTA
TGGTGCATTAGCAGTTTCAGGTTTTGACTCAACAGCAGCGCTCGCTGAACGTCTCTTGGA
CACATTCTTTCCAAAGAATGAAGAAGATGATAAAGATGATGACAAACCAATCTCTGCAAC
TGAAGACCCAGTCTTGCATTCAGTACAAACTATTGGTGCACTTTCGAATAAAGTAGCTCG
TCGCGTCTATAGAACTGTTTCTCGACAAGTCAAGCAACTGAAGAAAGAAGATCTTGCCGA
ATACCTTGCCTCACTTATTGCTGTCCTTCGACTTACTCAATACCTTAATATCATCAACAA
ATCCAATTTATTTCAACAACAACCACAACAGTCGAACTCAAACGGAACAGCTATAGTGAA
AGTTGATGCTAAATGAATAACATCGAATCTATTACTCAGGAGACATTTTTTCTTTCTTCT
CTATACATAATTTTTATTTAAGCTAAGCTAATCCAGTGGAGAATAATTGAAATTTTTGTT
TTTATATGTATGTCATCTATTGTTTTTTTGGGGAATATTTTTGTTACATTTATTGGCAGC
AATTGAAATGTTGCTAAAAATTGTTTAATAAATTCTTTTTGATAAAAATTAAAAA
>g12496.t16 Gene=g12496 Length=260
MFLLYCLIWNQLIAYSPYQFAQLHYFNPMFNWAFRTAEDVVKGAVTISAPIVNKFDKPIN
FVDQTLVKGIDKLEASAPIIKEQPGEILSQAKTRVIGVVQPRIDRVCEFRRASTEKAASL
KELSYNKANEVLATHYGALAVSGFDSTAALAERLLDTFFPKNEEDDKDDDKPISATEDPV
LHSVQTIGALSNKVARRVYRTVSRQVKQLKKEDLAEYLASLIAVLRLTQYLNIINKSNLF
QQQPQQSNSNGTAIVKVDAK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g12496.t16 | Coils | Coil | Coil | 192 | 212 | - |
| 3 | g12496.t16 | PANTHER | PTHR14024 | PERILIPIN | 22 | 239 | 7.7E-98 |
| 4 | g12496.t16 | PANTHER | PTHR14024:SF50 | LIPID STORAGE DROPLETS SURFACE-BINDING PROTEIN 2 | 22 | 239 | 7.7E-98 |
| 2 | g12496.t16 | Pfam | PF03036 | Perilipin family | 27 | 233 | 2.2E-19 |
| 7 | g12496.t16 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 14 | - |
| 8 | g12496.t16 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 1 | - |
| 9 | g12496.t16 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 2 | 9 | - |
| 10 | g12496.t16 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 10 | 14 | - |
| 6 | g12496.t16 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 15 | 260 | - |
| 1 | g12496.t16 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
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