Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

Parent gene

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.t3 TTS g193.t3 1639174 1639174
chr_3 g193 g193.t3 isoform g193.t3 1639353 1639967
chr_3 g193 g193.t3 exon g193.t3.exon1 1639353 1639445
chr_3 g193 g193.t3 cds g193.t3.CDS1 1639429 1639445
chr_3 g193 g193.t3 exon g193.t3.exon2 1639505 1639967
chr_3 g193 g193.t3 cds g193.t3.CDS2 1639505 1639967
chr_3 g193 g193.t3 TSS g193.t3 1640031 1640031

Sequences

>g193.t3 Gene=g193 Length=556
ATGGAGTTTTTACACAGCGTGATCGAAGCCTTTTCAAATTGTTGCCTTAATTGTAGGGAA
GAGGAAGCAAGAGCAGGAGAAGCGACTGAACGTTCACCATTATTACAGCAGCAAGATCAA
AGAAATCAAACTCTACAGATTCGAAGAATAAGTGAAAATAATATTGATGAGAATGAAATT
TCAACTTCATTTCCAACAAGAGAGAAAGACGAACAAACAGCATTAAGTCGAATTGTGCAA
GAGACAAATTCAAATATAATTGATGTTTCAGCTTTAGACACACATCACATGTTGGAACAA
AGTGAATACAATGACAGAGTAAAATTATACAATCAGAGATTAGCGCAGCAATGGAATAAT
ATTCCTGTTCCTGAATTAGGCTATAATGGTTTATTAAAAGATATGCCGAATCCAGAAATT
TTACTCAATTTTAATCCTACAACAGAAGAATTAGCTATTGTAAGCCAAAAACTTTGTTAA
AGAAGCAGCTCAAGCCATAAATGACATGAAGATTGATAATCAAGATGATCTTGTTGTACC
TTTTCACTTTAAATAA

>g193.t3 Gene=g193 Length=159
MEFLHSVIEAFSNCCLNCREEEARAGEATERSPLLQQQDQRNQTLQIRRISENNIDENEI
STSFPTREKDEQTALSRIVQETNSNIIDVSALDTHHMLEQSEYNDRVKLYNQRLAQQWNN
IPVPELGYNGLLKDMPNPEILLNFNPTTEELAIVSQKLC

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g193.t3 PANTHER PTHR13401 RAGULATOR COMPLEX PROTEIN LAMTOR1 13 155 0
1 g193.t3 Pfam PF15454 Late endosomal/lysosomal adaptor and MAPK and MTOR activator 30 106 0
3 g193.t3 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 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