Gene loci information

Transcript annotation

  • This transcript has been annotated as Proton-coupled amino acid transporter-like protein pathetic.

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 g3681 g3681.t38 TSS g3681.t38 27391001 27391001
chr_3 g3681 g3681.t38 isoform g3681.t38 27391848 27393025
chr_3 g3681 g3681.t38 exon g3681.t38.exon1 27391848 27391988
chr_3 g3681 g3681.t38 cds g3681.t38.CDS1 27391938 27391988
chr_3 g3681 g3681.t38 exon g3681.t38.exon2 27392559 27393025
chr_3 g3681 g3681.t38 cds g3681.t38.CDS2 27392559 27393023
chr_3 g3681 g3681.t38 TTS g3681.t38 NA NA

Sequences

>g3681.t38 Gene=g3681 Length=608
AAAATTGCACCCGCAACAAATGTCGAGAAAGGAATTTTATCGGATTATGATCCTTTCAAA
GAAAGGAAAGTAGATCATCCTACGTCAGATATGGATACATTGACTCATTTATTGAAAGCA
TCACTTGGCACTGGAATATTGGCAATGCCATTGGCATTTAGCTATTCTGGTTTAGTGACA
GGTATTTTTGCAACTATTCTGACGGCGCTTATATGTACTCACTGCGCCTATATCCTTGTT
AAATGCAGTCATTCATTATATTACCGCACTCGAAGGTCAACAATGAACTTTTCTGAAGTA
GCAGAAGCAGCTTGTTTAAATGGACCTGCGTGGGCACGTCCATGGGCACAATTTCTAAAG
CATTTCATCAATTATGGTCTCTTCATTACATATTTTGGAACATGTTCCGTATATACAGTG
ATTATTGCTGAAAATTTTCAACAAATTATTCAACATTACACTGAATGGAATGTCGATGTT
CGTGTTTATATTGCAATTTTATTAATCCCATTGATTTTATTGTCATGGGTACCAAATCTC
AAGTATCTTGCACCATTCTCTTCTGTGGCTAACATATTCATGGGAATTGGATTATTGATA
ACATTTTA

>g3681.t38 Gene=g3681 Length=172
MDTLTHLLKASLGTGILAMPLAFSYSGLVTGIFATILTALICTHCAYILVKCSHSLYYRT
RRSTMNFSEVAEAACLNGPAWARPWAQFLKHFINYGLFITYFGTCSVYTVIIAENFQQII
QHYTEWNVDVRVYIAILLIPLILLSWVPNLKYLAPFSSVANIFMGIGLLITF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g3681.t38 PANTHER PTHR22950 AMINO ACID TRANSPORTER 2 172 5.5E-77
3 g3681.t38 PANTHER PTHR22950:SF154 PROTON-COUPLED AMINO ACID TRANSPORTER-LIKE PROTEIN PATHETIC 2 172 5.5E-77
1 g3681.t38 Pfam PF01490 Transmembrane amino acid transporter protein 3 167 2.6E-28
9 g3681.t38 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 6 -
16 g3681.t38 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 7 25 -
14 g3681.t38 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 26 30 -
20 g3681.t38 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 31 50 -
10 g3681.t38 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 51 69 -
15 g3681.t38 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 70 86 -
13 g3681.t38 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 87 91 -
18 g3681.t38 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 92 116 -
11 g3681.t38 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 117 127 -
17 g3681.t38 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 128 146 -
12 g3681.t38 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 147 151 -
19 g3681.t38 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 152 171 -
8 g3681.t38 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 172 172 -
4 g3681.t38 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 28 50 -
7 g3681.t38 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 91 113 -
6 g3681.t38 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 128 147 -
5 g3681.t38 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 152 171 -

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