General information for g3681.t23
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.t23 | TSS | g3681.t23 | 27386206 | 27386206 |
| chr_3 | g3681 | g3681.t23 | isoform | g3681.t23 | 27386248 | 27394647 |
| chr_3 | g3681 | g3681.t23 | exon | g3681.t23.exon1 | 27386248 | 27386387 |
| chr_3 | g3681 | g3681.t23 | exon | g3681.t23.exon2 | 27390194 | 27390227 |
| chr_3 | g3681 | g3681.t23 | exon | g3681.t23.exon3 | 27390295 | 27390365 |
| chr_3 | g3681 | g3681.t23 | exon | g3681.t23.exon4 | 27391844 | 27391988 |
| chr_3 | g3681 | g3681.t23 | exon | g3681.t23.exon5 | 27392559 | 27393108 |
| chr_3 | g3681 | g3681.t23 | exon | g3681.t23.exon6 | 27393228 | 27393325 |
| chr_3 | g3681 | g3681.t23 | cds | g3681.t23.CDS1 | 27393259 | 27393325 |
| chr_3 | g3681 | g3681.t23 | exon | g3681.t23.exon7 | 27393449 | 27394647 |
| chr_3 | g3681 | g3681.t23 | cds | g3681.t23.CDS2 | 27393449 | 27394068 |
| chr_3 | g3681 | g3681.t23 | TTS | g3681.t23 | NA | NA |
Sequences
>g3681.t23 Gene=g3681 Length=2237
TCTGTTAATTATTTTCTCTCTTTATACCGTTTCATATCCATTTTTGTGATAAAAAATATA
AAATAAAAAGTGAGTGGAAAAATTATCAAATTATAAAATAATATTATTGTGTTATAAAAA
ATAAGGAAACTTTTAATATGATTAATTTAAAAAAGCAACGCTAAAATGGTAAATGAATAT
ACTGGTCCCCCACCTCAAGAACTCGAAACATTTATATCAAAAGACCAAAAGAATGGATCT
TCAACGTACAAAATTGCACCCGCAACAAATGTCGAGAAAGGAATTTTATCGGATTATGAT
CCTTTCAAAGAAAGGAAAGTAGATCATCCTACGTCAGATATGGATACATTGACTCATTTA
TTGAAAGCATCACTTGGCACTGGAATATTGGCAATGCCATTGGCATTTAGCTATTCTGGT
TTAGTGACAGGTATTTTTGCAACTATTCTGACGGCGCTTATATGTACTCACTGCGCCTAT
ATCCTTGTTAAATGCAGTCATTCATTATATTACCGCACTCGAAGGTCAACAATGAACTTT
TCTGAAGTAGCAGAAGCAGCTTGTTTAAATGGACCTGCGTGGGCACGTCCATGGGCACAA
TTTCTAAAGCATTTCATCAATTATGGTCTCTTCATTACATATTTTGGAACATGTTCCGTA
TATACAGTGATTATTGCTGAAAATTTTCAACAAATTATTCAACATTACACTGAATGGAAT
GTCGATGTTCGTGTTTATATTGCAATTTTATTAATCCCATTGATTTTATTGTCATGGGTA
CCAAATCTCAAGTATCTTGCACCATTCTCTTCTGTGGCTAACATATTCATGGGAATTGGA
TTATTGATAACATTTTACTATTGCGTAACAGATATGCCAAACATTAGTGAACGTGAAATG
CATACATCATTATTGCAAATCCCGCCATTCTTTGGAATAACTATATTTAAATTAAGGCAA
TAGGAGTTGTAATGCCGCTTGAAAATTCTATGAAAACACCTAAGCACTTCATTGGAATCT
GTGGTGTATTAAATCAAGGTATGAGCGGTGTAACTTTGGTTTATATTCTACTCGGTTTCG
TTGGTTATGTAAAATATGGAAATGAAGCAAAAGGATCAATAACATTGAATTTACCTATAG
AGGATTTAGCAGCACAAACTGTGAAAATTTTAATTGCATTAGCTGTTTATTGTACATTTG
GTCTTCAATTTTATGTCTGCCTTGAAATTGGATGGGATTTTATTAAAGATAAATTTAGAA
AACGTCCTTTGCTAGTTAACTACATGATGAGAACAGTTCTTGTTACTGCCGCTGTCTTAC
TTGCTGTCGCTGTGCCTACAATTGGACCTTTTGTTGGCTTACTCGGTGCCTTCTGTTTCT
CAATTCTGGGATTACTCGTGCCTGTACTTATTGAAATGATTACATACTGGGATGAAGGAT
TTGGAAAATTGAACTGGATAATTTGGAAAAATGTAATTGTTTGCATTTTTGGAATTCTTG
CTCTTGTTTTTGGTTCAAAGGATGCAATAGCTGATATTATGAAAATGTATAATGAAAACC
CAAGTGCTGATAATGCAACAACAATATTAGCTATCACAAATATGAATGAAATAGTAGAAG
AACTCACCACACTATTACCAACTACTACAGGTGTTTGAAAAAAAGCAAGTCATAAACTCC
GGCATCATTTAACGTATTTGAATTTTTTTCTCAATATAAATTTTCATCATATGCAGCGAA
TATTCTTTAAATAACATATTGTAGTTAAAATTAAGATGCTGCCTAGATAGGTAGATATAG
GCTTTAGTTATTTTAAAAAACTGCTTTTACAACTATAAAATGTTCAGGTTCAGCACAGAA
AGTGTTAGGTTTTTGTGATTTTCTAAGCTGATCAAAAACAAAAGTAAAAATGAATTAAAA
GACTTGTTAAATTTTATATTTTTCTTCTTATTTTAGTAAAATTAAAGTAGTTTATCAGTT
TATTATTATATCAATAAATCACTTGATTTCGAAATCCCATTAAAATTTTTTGATATAACT
TTTAAAACTATCGGTTCTAACATTTGAAAGAATAAAACAAAACTTTATAGAAATGAATTA
AGAACTGTATTTTTGTGAAATTTCAGATTCGATTTAAAACATCAAATTATCATAGTAGAT
TTTTTTTATACTTGATAAATCTGTCTCTATAGTTAATACTATGGAATGAACAATTTTTTT
ATATATTTAATTCATTT
>g3681.t23 Gene=g3681 Length=228
MPLENSMKTPKHFIGICGVLNQGMSGVTLVYILLGFVGYVKYGNEAKGSITLNLPIEDLA
AQTVKILIALAVYCTFGLQFYVCLEIGWDFIKDKFRKRPLLVNYMMRTVLVTAAVLLAVA
VPTIGPFVGLLGAFCFSILGLLVPVLIEMITYWDEGFGKLNWIIWKNVIVCIFGILALVF
GSKDAIADIMKMYNENPSADNATTILAITNMNEIVEELTTLLPTTTGV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g3681.t23 | PANTHER | PTHR22950 | AMINO ACID TRANSPORTER | 1 | 193 | 5.8E-99 |
| 3 | g3681.t23 | PANTHER | PTHR22950:SF154 | PROTON-COUPLED AMINO ACID TRANSPORTER-LIKE PROTEIN PATHETIC | 1 | 193 | 5.8E-99 |
| 1 | g3681.t23 | Pfam | PF01490 | Transmembrane amino acid transporter protein | 2 | 183 | 1.9E-32 |
| 8 | g3681.t23 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 15 | g3681.t23 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 39 | - |
| 11 | g3681.t23 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 40 | 58 | - |
| 18 | g3681.t23 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 59 | 84 | - |
| 10 | g3681.t23 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 85 | 103 | - |
| 14 | g3681.t23 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 104 | 124 | - |
| 13 | g3681.t23 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 125 | 129 | - |
| 17 | g3681.t23 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 130 | 150 | - |
| 9 | g3681.t23 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 151 | 161 | - |
| 16 | g3681.t23 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 162 | 181 | - |
| 12 | g3681.t23 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 182 | 228 | - |
| 6 | g3681.t23 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 35 | - |
| 5 | g3681.t23 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 66 | 88 | - |
| 7 | g3681.t23 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 109 | 143 | - |
| 4 | g3681.t23 | 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