General information for g3681.t41
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Proton-coupled amino acid transporter-like protein pathetic.
Parent gene
- The parent gene g3681 is located on chr_3: 27393447..27394647 (+ 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 | g3681 | g3681.t41 | isoform | g3681.t41 | 27392640 | 27394367 |
| chr_3 | g3681 | g3681.t41 | exon | g3681.t41.exon1 | 27392640 | 27393108 |
| chr_3 | g3681 | g3681.t41 | exon | g3681.t41.exon2 | 27393228 | 27393325 |
| chr_3 | g3681 | g3681.t41 | cds | g3681.t41.CDS1 | 27393259 | 27393325 |
| chr_3 | g3681 | g3681.t41 | exon | g3681.t41.exon3 | 27393449 | 27394367 |
| chr_3 | g3681 | g3681.t41 | cds | g3681.t41.CDS2 | 27393449 | 27394068 |
| chr_3 | g3681 | g3681.t41 | TTS | g3681.t41 | 27394504 | 27394504 |
| chr_3 | g3681 | g3681.t41 | TSS | g3681.t41 | NA | NA |
Sequences
>g3681.t41 Gene=g3681 Length=1486
TGCGCCTATATCCTTGTTAAATGCAGTCATTCATTATATTACCGCACTCGAAGGTCAACA
ATGAACTTTTCTGAAGTAGCAGAAGCAGCTTGTTTAAATGGACCTGCGTGGGCACGTCCA
TGGGCACAATTTCTAAAGCATTTCATCAATTATGGTCTCTTCATTACATATTTTGGAACA
TGTTCCGTATATACAGTGATTATTGCTGAAAATTTTCAACAAATTATTCAACATTACACT
GAATGGAATGTCGATGTTCGTGTTTATATTGCAATTTTATTAATCCCATTGATTTTATTG
TCATGGGTACCAAATCTCAAGTATCTTGCACCATTCTCTTCTGTGGCTAACATATTCATG
GGAATTGGATTATTGATAACATTTTACTATTGCGTAACAGATATGCCAAACATTAGTGAA
CGTGAAATGCATACATCATTATTGCAAATCCCGCCATTCTTTGGAATAACTATATTTAAA
TTAAGGCAATAGGAGTTGTAATGCCGCTTGAAAATTCTATGAAAACACCTAAGCACTTCA
TTGGAATCTGTGGTGTATTAAATCAAGGTATGAGCGGTGTAACTTTGGTTTATATTCTAC
TCGGTTTCGTTGGTTATGTAAAATATGGAAATGAAGCAAAAGGATCAATAACATTGAATT
TACCTATAGAGGATTTAGCAGCACAAACTGTGAAAATTTTAATTGCATTAGCTGTTTATT
GTACATTTGGTCTTCAATTTTATGTCTGCCTTGAAATTGGATGGGATTTTATTAAAGATA
AATTTAGAAAACGTCCTTTGCTAGTTAACTACATGATGAGAACAGTTCTTGTTACTGCCG
CTGTCTTACTTGCTGTCGCTGTGCCTACAATTGGACCTTTTGTTGGCTTACTCGGTGCCT
TCTGTTTCTCAATTCTGGGATTACTCGTGCCTGTACTTATTGAAATGATTACATACTGGG
ATGAAGGATTTGGAAAATTGAACTGGATAATTTGGAAAAATGTAATTGTTTGCATTTTTG
GAATTCTTGCTCTTGTTTTTGGTTCAAAGGATGCAATAGCTGATATTATGAAAATGTATA
ATGAAAACCCAAGTGCTGATAATGCAACAACAATATTAGCTATCACAAATATGAATGAAA
TAGTAGAAGAACTCACCACACTATTACCAACTACTACAGGTGTTTGAAAAAAAGCAAGTC
ATAAACTCCGGCATCATTTAACGTATTTGAATTTTTTTCTCAATATAAATTTTCATCATA
TGCAGCGAATATTCTTTAAATAACATATTGTAGTTAAAATTAAGATGCTGCCTAGATAGG
TAGATATAGGCTTTAGTTATTTTAAAAAACTGCTTTTACAACTATAAAATGTTCAGGTTC
AGCACAGAAAGTGTTAGGTTTTTGTGATTTTCTAAGCTGATCAAAAACAAAAGTAAAAAT
GAATTAAAAGACTTGTTAAATTTTATATTTTTCTTCTTATTTTAGT
>g3681.t41 Gene=g3681 Length=228
MPLENSMKTPKHFIGICGVLNQGMSGVTLVYILLGFVGYVKYGNEAKGSITLNLPIEDLA
AQTVKILIALAVYCTFGLQFYVCLEIGWDFIKDKFRKRPLLVNYMMRTVLVTAAVLLAVA
VPTIGPFVGLLGAFCFSILGLLVPVLIEMITYWDEGFGKLNWIIWKNVIVCIFGILALVF
GSKDAIADIMKMYNENPSADNATTILAITNMNEIVEELTTLLPTTTGV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g3681.t41 | PANTHER | PTHR22950 | AMINO ACID TRANSPORTER | 1 | 193 | 5.8E-99 |
| 3 | g3681.t41 | PANTHER | PTHR22950:SF154 | PROTON-COUPLED AMINO ACID TRANSPORTER-LIKE PROTEIN PATHETIC | 1 | 193 | 5.8E-99 |
| 1 | g3681.t41 | Pfam | PF01490 | Transmembrane amino acid transporter protein | 2 | 183 | 1.9E-32 |
| 8 | g3681.t41 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 15 | g3681.t41 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 39 | - |
| 11 | g3681.t41 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 40 | 58 | - |
| 18 | g3681.t41 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 59 | 84 | - |
| 10 | g3681.t41 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 85 | 103 | - |
| 14 | g3681.t41 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 104 | 124 | - |
| 13 | g3681.t41 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 125 | 129 | - |
| 17 | g3681.t41 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 130 | 150 | - |
| 9 | g3681.t41 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 151 | 161 | - |
| 16 | g3681.t41 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 162 | 181 | - |
| 12 | g3681.t41 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 182 | 228 | - |
| 6 | g3681.t41 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 35 | - |
| 5 | g3681.t41 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 66 | 88 | - |
| 7 | g3681.t41 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 109 | 143 | - |
| 4 | g3681.t41 | 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