General information for g3681.t18
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.t18 | TSS | g3681.t18 | 27386206 | 27386206 |
| chr_3 | g3681 | g3681.t18 | isoform | g3681.t18 | 27386221 | 27394647 |
| chr_3 | g3681 | g3681.t18 | exon | g3681.t18.exon1 | 27386221 | 27386316 |
| chr_3 | g3681 | g3681.t18 | exon | g3681.t18.exon2 | 27390259 | 27390365 |
| chr_3 | g3681 | g3681.t18 | exon | g3681.t18.exon3 | 27391844 | 27391988 |
| chr_3 | g3681 | g3681.t18 | exon | g3681.t18.exon4 | 27392559 | 27393108 |
| chr_3 | g3681 | g3681.t18 | exon | g3681.t18.exon5 | 27393226 | 27393325 |
| chr_3 | g3681 | g3681.t18 | cds | g3681.t18.CDS1 | 27393259 | 27393325 |
| chr_3 | g3681 | g3681.t18 | exon | g3681.t18.exon6 | 27393449 | 27394647 |
| chr_3 | g3681 | g3681.t18 | cds | g3681.t18.CDS2 | 27393449 | 27394068 |
| chr_3 | g3681 | g3681.t18 | TTS | g3681.t18 | NA | NA |
Sequences
>g3681.t18 Gene=g3681 Length=2197
CGCCAACTGAAGTAGAAAGAAATTTATTCTGTTAATTATTTTCTCTCTTTATACCGTTTC
ATATCCATTTTTGTGATAAAAAATATAAAATAAAAAAATTATTTAAAACAAATTTAATTT
TCTTGAAAATAGGAATATACTGGTCCCCCACCTCAAGAACTCGAAACATTTATATCAAAA
GACCAAAAGAATGGATCTTCAACGTACAAAATTGCACCCGCAACAAATGTCGAGAAAGGA
ATTTTATCGGATTATGATCCTTTCAAAGAAAGGAAAGTAGATCATCCTACGTCAGATATG
GATACATTGACTCATTTATTGAAAGCATCACTTGGCACTGGAATATTGGCAATGCCATTG
GCATTTAGCTATTCTGGTTTAGTGACAGGTATTTTTGCAACTATTCTGACGGCGCTTATA
TGTACTCACTGCGCCTATATCCTTGTTAAATGCAGTCATTCATTATATTACCGCACTCGA
AGGTCAACAATGAACTTTTCTGAAGTAGCAGAAGCAGCTTGTTTAAATGGACCTGCGTGG
GCACGTCCATGGGCACAATTTCTAAAGCATTTCATCAATTATGGTCTCTTCATTACATAT
TTTGGAACATGTTCCGTATATACAGTGATTATTGCTGAAAATTTTCAACAAATTATTCAA
CATTACACTGAATGGAATGTCGATGTTCGTGTTTATATTGCAATTTTATTAATCCCATTG
ATTTTATTGTCATGGGTACCAAATCTCAAGTATCTTGCACCATTCTCTTCTGTGGCTAAC
ATATTCATGGGAATTGGATTATTGATAACATTTTACTATTGCGTAACAGATATGCCAAAC
ATTAGTGAACGTGAAATGCATACATCATTATTGCAAATCCCGCCATTCTTTGGAATAAAA
CTATATTTAAATTAAGGCAATAGGAGTTGTAATGCCGCTTGAAAATTCTATGAAAACACC
TAAGCACTTCATTGGAATCTGTGGTGTATTAAATCAAGGTATGAGCGGTGTAACTTTGGT
TTATATTCTACTCGGTTTCGTTGGTTATGTAAAATATGGAAATGAAGCAAAAGGATCAAT
AACATTGAATTTACCTATAGAGGATTTAGCAGCACAAACTGTGAAAATTTTAATTGCATT
AGCTGTTTATTGTACATTTGGTCTTCAATTTTATGTCTGCCTTGAAATTGGATGGGATTT
TATTAAAGATAAATTTAGAAAACGTCCTTTGCTAGTTAACTACATGATGAGAACAGTTCT
TGTTACTGCCGCTGTCTTACTTGCTGTCGCTGTGCCTACAATTGGACCTTTTGTTGGCTT
ACTCGGTGCCTTCTGTTTCTCAATTCTGGGATTACTCGTGCCTGTACTTATTGAAATGAT
TACATACTGGGATGAAGGATTTGGAAAATTGAACTGGATAATTTGGAAAAATGTAATTGT
TTGCATTTTTGGAATTCTTGCTCTTGTTTTTGGTTCAAAGGATGCAATAGCTGATATTAT
GAAAATGTATAATGAAAACCCAAGTGCTGATAATGCAACAACAATATTAGCTATCACAAA
TATGAATGAAATAGTAGAAGAACTCACCACACTATTACCAACTACTACAGGTGTTTGAAA
AAAAGCAAGTCATAAACTCCGGCATCATTTAACGTATTTGAATTTTTTTCTCAATATAAA
TTTTCATCATATGCAGCGAATATTCTTTAAATAACATATTGTAGTTAAAATTAAGATGCT
GCCTAGATAGGTAGATATAGGCTTTAGTTATTTTAAAAAACTGCTTTTACAACTATAAAA
TGTTCAGGTTCAGCACAGAAAGTGTTAGGTTTTTGTGATTTTCTAAGCTGATCAAAAACA
AAAGTAAAAATGAATTAAAAGACTTGTTAAATTTTATATTTTTCTTCTTATTTTAGTAAA
ATTAAAGTAGTTTATCAGTTTATTATTATATCAATAAATCACTTGATTTCGAAATCCCAT
TAAAATTTTTTGATATAACTTTTAAAACTATCGGTTCTAACATTTGAAAGAATAAAACAA
AACTTTATAGAAATGAATTAAGAACTGTATTTTTGTGAAATTTCAGATTCGATTTAAAAC
ATCAAATTATCATAGTAGATTTTTTTTATACTTGATAAATCTGTCTCTATAGTTAATACT
ATGGAATGAACAATTTTTTTATATATTTAATTCATTT
>g3681.t18 Gene=g3681 Length=228
MPLENSMKTPKHFIGICGVLNQGMSGVTLVYILLGFVGYVKYGNEAKGSITLNLPIEDLA
AQTVKILIALAVYCTFGLQFYVCLEIGWDFIKDKFRKRPLLVNYMMRTVLVTAAVLLAVA
VPTIGPFVGLLGAFCFSILGLLVPVLIEMITYWDEGFGKLNWIIWKNVIVCIFGILALVF
GSKDAIADIMKMYNENPSADNATTILAITNMNEIVEELTTLLPTTTGV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g3681.t18 | PANTHER | PTHR22950 | AMINO ACID TRANSPORTER | 1 | 193 | 5.8E-99 |
| 3 | g3681.t18 | PANTHER | PTHR22950:SF154 | PROTON-COUPLED AMINO ACID TRANSPORTER-LIKE PROTEIN PATHETIC | 1 | 193 | 5.8E-99 |
| 1 | g3681.t18 | Pfam | PF01490 | Transmembrane amino acid transporter protein | 2 | 183 | 1.9E-32 |
| 8 | g3681.t18 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 15 | g3681.t18 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 39 | - |
| 11 | g3681.t18 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 40 | 58 | - |
| 18 | g3681.t18 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 59 | 84 | - |
| 10 | g3681.t18 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 85 | 103 | - |
| 14 | g3681.t18 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 104 | 124 | - |
| 13 | g3681.t18 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 125 | 129 | - |
| 17 | g3681.t18 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 130 | 150 | - |
| 9 | g3681.t18 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 151 | 161 | - |
| 16 | g3681.t18 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 162 | 181 | - |
| 12 | g3681.t18 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 182 | 228 | - |
| 6 | g3681.t18 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 35 | - |
| 5 | g3681.t18 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 66 | 88 | - |
| 7 | g3681.t18 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 109 | 143 | - |
| 4 | g3681.t18 | 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.
