General information for g8293.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Ragulator complex protein LAMTOR2-like protein.
Parent gene
- The parent gene g8293 is located on chr_2: 29594073..29594568 (- 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_2 | g8293 | g8293.t1 | TTS | g8293.t1 | 29594005 | 29594005 |
| chr_2 | g8293 | g8293.t1 | isoform | g8293.t1 | 29594073 | 29594568 |
| chr_2 | g8293 | g8293.t1 | exon | g8293.t1.exon1 | 29594073 | 29594186 |
| chr_2 | g8293 | g8293.t1 | cds | g8293.t1.CDS1 | 29594073 | 29594186 |
| chr_2 | g8293 | g8293.t1 | exon | g8293.t1.exon2 | 29594251 | 29594437 |
| chr_2 | g8293 | g8293.t1 | cds | g8293.t1.CDS2 | 29594251 | 29594437 |
| chr_2 | g8293 | g8293.t1 | exon | g8293.t1.exon3 | 29594501 | 29594568 |
| chr_2 | g8293 | g8293.t1 | cds | g8293.t1.CDS3 | 29594501 | 29594568 |
| chr_2 | g8293 | g8293.t1 | TSS | g8293.t1 | 29594636 | 29594636 |
Sequences
>g8293.t1 Gene=g8293 Length=369
ATGCTGAAACCAAAAGTTTTGACAAATGTTTTGAGCCAAGCAAACACAGGAGGAGTTGAA
AATACACTTTTATTAAATTCAGATGGTACTTTATTAGCATTTTCTGGTTTTCATAATCGA
GACGCTAGAATAACATCAGCGATTGCAAGTAATGTATGGTGTGCATATGAAAAACATGGA
CACAATTCCTTTAGAGAAGATCCTTTGAATTATTTAATTATCAATTGTGAAGGAGGAAAT
GTTATTGTGACACAAGTTGCTAATCTTCTTTTATGCCTTTATGCAACAACAAACGATTTT
GGATTACTGAAAGCAAAAATTGCTAAATTAAAAGAAACTCTTGAACAACCACTCATGTCG
ATATCGTGA
>g8293.t1 Gene=g8293 Length=122
MLKPKVLTNVLSQANTGGVENTLLLNSDGTLLAFSGFHNRDARITSAIASNVWCAYEKHG
HNSFREDPLNYLIINCEGGNVIVTQVANLLLCLYATTNDFGLLKAKIAKLKETLEQPLMS
IS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g8293.t1 | Gene3D | G3DSA:3.30.450.30 | Dynein light chain 2a | 1 | 122 | 0 |
| 2 | g8293.t1 | PANTHER | PTHR13323 | LATE ENDOSOMAL/LYSOSOMAL MP1 INTERACTING PROTEIN | 1 | 121 | 0 |
| 3 | g8293.t1 | PANTHER | PTHR13323:SF4 | RAGULATOR COMPLEX PROTEIN LAMTOR2 | 1 | 121 | 0 |
| 1 | g8293.t1 | Pfam | PF03259 | Roadblock/LC7 domain | 8 | 94 | 0 |
| 5 | g8293.t1 | SMART | SM00960 | Robl_LC7_a_2 | 7 | 95 | 0 |
| 4 | g8293.t1 | SUPERFAMILY | SSF103196 | Roadblock/LC7 domain | 1 | 116 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0060090 | molecular adaptor activity | MF |
| GO:0005085 | guanyl-nucleotide exchange factor activity | MF |
| GO:0032008 | positive regulation of TOR signaling | BP |
KEGG
Orthology
- This transcript has been annotated with K20398 (ragulator complex protein LAMTOR2)
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.
