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.t14 TSS g3681.t14 27386206 27386206
chr_3 g3681 g3681.t14 isoform g3681.t14 27386221 27394647
chr_3 g3681 g3681.t14 exon g3681.t14.exon1 27386221 27386243
chr_3 g3681 g3681.t14 exon g3681.t14.exon2 27390295 27390365
chr_3 g3681 g3681.t14 exon g3681.t14.exon3 27391844 27391988
chr_3 g3681 g3681.t14 exon g3681.t14.exon4 27392559 27393108
chr_3 g3681 g3681.t14 exon g3681.t14.exon5 27393228 27393325
chr_3 g3681 g3681.t14 cds g3681.t14.CDS1 27393259 27393325
chr_3 g3681 g3681.t14 exon g3681.t14.exon6 27393449 27394647
chr_3 g3681 g3681.t14 cds g3681.t14.CDS2 27393449 27394068
chr_3 g3681 g3681.t14 TTS g3681.t14 NA NA

Sequences

>g3681.t14 Gene=g3681 Length=2086
CGCCAACTGAAGTAGAAAGAAATGAATATACTGGTCCCCCACCTCAAGAACTCGAAACAT
TTATATCAAAAGACCAAAAGAATGGATCTTCAACGTACAAAATTGCACCCGCAACAAATG
TCGAGAAAGGAATTTTATCGGATTATGATCCTTTCAAAGAAAGGAAAGTAGATCATCCTA
CGTCAGATATGGATACATTGACTCATTTATTGAAAGCATCACTTGGCACTGGAATATTGG
CAATGCCATTGGCATTTAGCTATTCTGGTTTAGTGACAGGTATTTTTGCAACTATTCTGA
CGGCGCTTATATGTACTCACTGCGCCTATATCCTTGTTAAATGCAGTCATTCATTATATT
ACCGCACTCGAAGGTCAACAATGAACTTTTCTGAAGTAGCAGAAGCAGCTTGTTTAAATG
GACCTGCGTGGGCACGTCCATGGGCACAATTTCTAAAGCATTTCATCAATTATGGTCTCT
TCATTACATATTTTGGAACATGTTCCGTATATACAGTGATTATTGCTGAAAATTTTCAAC
AAATTATTCAACATTACACTGAATGGAATGTCGATGTTCGTGTTTATATTGCAATTTTAT
TAATCCCATTGATTTTATTGTCATGGGTACCAAATCTCAAGTATCTTGCACCATTCTCTT
CTGTGGCTAACATATTCATGGGAATTGGATTATTGATAACATTTTACTATTGCGTAACAG
ATATGCCAAACATTAGTGAACGTGAAATGCATACATCATTATTGCAAATCCCGCCATTCT
TTGGAATAACTATATTTAAATTAAGGCAATAGGAGTTGTAATGCCGCTTGAAAATTCTAT
GAAAACACCTAAGCACTTCATTGGAATCTGTGGTGTATTAAATCAAGGTATGAGCGGTGT
AACTTTGGTTTATATTCTACTCGGTTTCGTTGGTTATGTAAAATATGGAAATGAAGCAAA
AGGATCAATAACATTGAATTTACCTATAGAGGATTTAGCAGCACAAACTGTGAAAATTTT
AATTGCATTAGCTGTTTATTGTACATTTGGTCTTCAATTTTATGTCTGCCTTGAAATTGG
ATGGGATTTTATTAAAGATAAATTTAGAAAACGTCCTTTGCTAGTTAACTACATGATGAG
AACAGTTCTTGTTACTGCCGCTGTCTTACTTGCTGTCGCTGTGCCTACAATTGGACCTTT
TGTTGGCTTACTCGGTGCCTTCTGTTTCTCAATTCTGGGATTACTCGTGCCTGTACTTAT
TGAAATGATTACATACTGGGATGAAGGATTTGGAAAATTGAACTGGATAATTTGGAAAAA
TGTAATTGTTTGCATTTTTGGAATTCTTGCTCTTGTTTTTGGTTCAAAGGATGCAATAGC
TGATATTATGAAAATGTATAATGAAAACCCAAGTGCTGATAATGCAACAACAATATTAGC
TATCACAAATATGAATGAAATAGTAGAAGAACTCACCACACTATTACCAACTACTACAGG
TGTTTGAAAAAAAGCAAGTCATAAACTCCGGCATCATTTAACGTATTTGAATTTTTTTCT
CAATATAAATTTTCATCATATGCAGCGAATATTCTTTAAATAACATATTGTAGTTAAAAT
TAAGATGCTGCCTAGATAGGTAGATATAGGCTTTAGTTATTTTAAAAAACTGCTTTTACA
ACTATAAAATGTTCAGGTTCAGCACAGAAAGTGTTAGGTTTTTGTGATTTTCTAAGCTGA
TCAAAAACAAAAGTAAAAATGAATTAAAAGACTTGTTAAATTTTATATTTTTCTTCTTAT
TTTAGTAAAATTAAAGTAGTTTATCAGTTTATTATTATATCAATAAATCACTTGATTTCG
AAATCCCATTAAAATTTTTTGATATAACTTTTAAAACTATCGGTTCTAACATTTGAAAGA
ATAAAACAAAACTTTATAGAAATGAATTAAGAACTGTATTTTTGTGAAATTTCAGATTCG
ATTTAAAACATCAAATTATCATAGTAGATTTTTTTTATACTTGATAAATCTGTCTCTATA
GTTAATACTATGGAATGAACAATTTTTTTATATATTTAATTCATTT

>g3681.t14 Gene=g3681 Length=228
MPLENSMKTPKHFIGICGVLNQGMSGVTLVYILLGFVGYVKYGNEAKGSITLNLPIEDLA
AQTVKILIALAVYCTFGLQFYVCLEIGWDFIKDKFRKRPLLVNYMMRTVLVTAAVLLAVA
VPTIGPFVGLLGAFCFSILGLLVPVLIEMITYWDEGFGKLNWIIWKNVIVCIFGILALVF
GSKDAIADIMKMYNENPSADNATTILAITNMNEIVEELTTLLPTTTGV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g3681.t14 PANTHER PTHR22950 AMINO ACID TRANSPORTER 1 193 5.8E-99
3 g3681.t14 PANTHER PTHR22950:SF154 PROTON-COUPLED AMINO ACID TRANSPORTER-LIKE PROTEIN PATHETIC 1 193 5.8E-99
1 g3681.t14 Pfam PF01490 Transmembrane amino acid transporter protein 2 183 1.9E-32
8 g3681.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
15 g3681.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 39 -
11 g3681.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 40 58 -
18 g3681.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 59 84 -
10 g3681.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 85 103 -
14 g3681.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 104 124 -
13 g3681.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 125 129 -
17 g3681.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 130 150 -
9 g3681.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 151 161 -
16 g3681.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 162 181 -
12 g3681.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 182 228 -
6 g3681.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -
5 g3681.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 66 88 -
7 g3681.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 109 143 -
4 g3681.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 163 182 -

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