General information for g193.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g193 is located on chr_3: 1639967..1641991 (- 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_3 | g193 | g193.t1 | TTS | g193.t1 | 1639174 | 1639174 |
| chr_3 | g193 | g193.t1 | isoform | g193.t1 | 1639353 | 1639967 |
| chr_3 | g193 | g193.t1 | exon | g193.t1.exon1 | 1639353 | 1639445 |
| chr_3 | g193 | g193.t1 | cds | g193.t1.CDS1 | 1639353 | 1639445 |
| chr_3 | g193 | g193.t1 | exon | g193.t1.exon2 | 1639509 | 1639967 |
| chr_3 | g193 | g193.t1 | cds | g193.t1.CDS2 | 1639509 | 1639967 |
| chr_3 | g193 | g193.t1 | TSS | g193.t1 | 1640031 | 1640031 |
Sequences
>g193.t1 Gene=g193 Length=552
ATGGAGTTTTTACACAGCGTGATCGAAGCCTTTTCAAATTGTTGCCTTAATTGTAGGGAA
GAGGAAGCAAGAGCAGGAGAAGCGACTGAACGTTCACCATTATTACAGCAGCAAGATCAA
AGAAATCAAACTCTACAGATTCGAAGAATAAGTGAAAATAATATTGATGAGAATGAAATT
TCAACTTCATTTCCAACAAGAGAGAAAGACGAACAAACAGCATTAAGTCGAATTGTGCAA
GAGACAAATTCAAATATAATTGATGTTTCAGCTTTAGACACACATCACATGTTGGAACAA
AGTGAATACAATGACAGAGTAAAATTATACAATCAGAGATTAGCGCAGCAATGGAATAAT
ATTCCTGTTCCTGAATTAGGCTATAATGGTTTATTAAAAGATATGCCGAATCCAGAAATT
TTACTCAATTTTAATCCTACAACAGAAGAATTAGCTATTGCCAAAAACTTTGTTAAAGAA
GCAGCTCAAGCCATAAATGACATGAAGATTGATAATCAAGATGATCTTGTTGTACCTTTT
CACTTTAAATAA
>g193.t1 Gene=g193 Length=183
MEFLHSVIEAFSNCCLNCREEEARAGEATERSPLLQQQDQRNQTLQIRRISENNIDENEI
STSFPTREKDEQTALSRIVQETNSNIIDVSALDTHHMLEQSEYNDRVKLYNQRLAQQWNN
IPVPELGYNGLLKDMPNPEILLNFNPTTEELAIAKNFVKEAAQAINDMKIDNQDDLVVPF
HFK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g193.t1 | PANTHER | PTHR13401 | RAGULATOR COMPLEX PROTEIN LAMTOR1 | 13 | 181 | 0 |
| 1 | g193.t1 | Pfam | PF15454 | Late endosomal/lysosomal adaptor and MAPK and MTOR activator | 30 | 106 | 0 |
| 3 | g193.t1 | SMART | SM01262 | LAMTOR_2 | 28 | 112 | 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:0016197 | endosomal transport | BP |
| GO:0031902 | late endosome membrane | CC |
| GO:0071986 | Ragulator complex | CC |
| GO:0032008 | positive regulation of TOR signaling | BP |
| GO:0071230 | cellular response to amino acid stimulus | BP |
| GO:0045121 | membrane raft | CC |
| GO:0042632 | cholesterol homeostasis | BP |
| GO:0043410 | positive regulation of MAPK cascade | BP |
| GO:0001919 | regulation of receptor recycling | BP |
| GO:0007040 | lysosome organization | BP |
KEGG
Orthology
- This transcript has been annotated with K20397 (ragulator complex protein LAMTOR1)
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.
