Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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_2 g7463 g7463.t3 TTS g7463.t3 23882765 23882765
chr_2 g7463 g7463.t3 isoform g7463.t3 23882906 23883632
chr_2 g7463 g7463.t3 exon g7463.t3.exon1 23882906 23883103
chr_2 g7463 g7463.t3 cds g7463.t3.CDS1 23882906 23883103
chr_2 g7463 g7463.t3 exon g7463.t3.exon2 23883163 23883436
chr_2 g7463 g7463.t3 cds g7463.t3.CDS2 23883163 23883436
chr_2 g7463 g7463.t3 exon g7463.t3.exon3 23883500 23883632
chr_2 g7463 g7463.t3 cds g7463.t3.CDS3 23883500 23883603
chr_2 g7463 g7463.t3 TSS g7463.t3 NA NA

Sequences

>g7463.t3 Gene=g7463 Length=605
TATCGAAATTTGGTGTTTTAAATTCCGGCATGACAATTGTAACTATATTATACGGTTTCG
TGGGATTTTTTGGTTATTTAAAATATGGTGAAAAGTCAAAAGACAGTATCACTTTAAGTT
TACCAGCTGGACTAGTTCCAATTATCACTCAGGGATTGTTTACGTTTGCAATTTTCATAT
CTTATGCATTGCAATGTTACGTACCAATATCAATTATTTGGGAGAATTATTGCAGCGATG
AAATGAAGAAATCAAATCATAGCGATAAATACTTATTGATATTACGTCTTCTTACTACGA
TTTTTACATTTATAATAGCTGCTGCTGTTCCGCACTTGGGTCTTTTCATTTCACTTTTTG
GCGCTTTCTGTCTGTCAATTTTAGGATTAGGCTTTCCAGCTATTATGGAAATTTGTGTTT
TGTGGCCAGACAAGTTTGGCAAACTCAATTGGCATTTATGGAAGGACATTGCTTTAGTTA
TTTTTGCATTTGCTGGCTTAACGAGTGGAACATTTGCATCAATGAAAGATATAATTGCCA
CATTCTCAACAGATGCATCTGAAGTAGCAAAAACTTTTACCAATGCTACAATTGAGCAAT
CTTAG

>g7463.t3 Gene=g7463 Length=191
MTIVTILYGFVGFFGYLKYGEKSKDSITLSLPAGLVPIITQGLFTFAIFISYALQCYVPI
SIIWENYCSDEMKKSNHSDKYLLILRLLTTIFTFIIAAAVPHLGLFISLFGAFCLSILGL
GFPAIMEICVLWPDKFGKLNWHLWKDIALVIFAFAGLTSGTFASMKDIIATFSTDASEVA
KTFTNATIEQS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g7463.t3 PANTHER PTHR22950:SF340 GLUTAMATE TRANSPORTER POLYPHEMUS-RELATED 1 172 7.4E-50
3 g7463.t3 PANTHER PTHR22950 AMINO ACID TRANSPORTER 1 172 7.4E-50
1 g7463.t3 Pfam PF01490 Transmembrane amino acid transporter protein 1 163 9.4E-24
11 g7463.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 37 -
14 g7463.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 38 60 -
9 g7463.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 61 80 -
15 g7463.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 81 100 -
12 g7463.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 101 105 -
16 g7463.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 106 131 -
10 g7463.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 132 142 -
17 g7463.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 143 163 -
13 g7463.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 164 191 -
6 g7463.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 2 17 -
4 g7463.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 32 54 -
5 g7463.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 82 104 -
7 g7463.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 109 131 -
8 g7463.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 143 165 -

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.

Raw TPM values