General information for g3681.t42
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.t42 | isoform | g3681.t42 | 27393447 | 27394367 |
| chr_3 | g3681 | g3681.t42 | exon | g3681.t42.exon1 | 27393447 | 27394367 |
| chr_3 | g3681 | g3681.t42 | cds | g3681.t42.CDS1 | 27393451 | 27394068 |
| chr_3 | g3681 | g3681.t42 | TTS | g3681.t42 | 27394504 | 27394504 |
| chr_3 | g3681 | g3681.t42 | TSS | g3681.t42 | NA | NA |
Sequences
>g3681.t42 Gene=g3681 Length=921
AGGTATGAGCGGTGTAACTTTGGTTTATATTCTACTCGGTTTCGTTGGTTATGTAAAATA
TGGAAATGAAGCAAAAGGATCAATAACATTGAATTTACCTATAGAGGATTTAGCAGCACA
AACTGTGAAAATTTTAATTGCATTAGCTGTTTATTGTACATTTGGTCTTCAATTTTATGT
CTGCCTTGAAATTGGATGGGATTTTATTAAAGATAAATTTAGAAAACGTCCTTTGCTAGT
TAACTACATGATGAGAACAGTTCTTGTTACTGCCGCTGTCTTACTTGCTGTCGCTGTGCC
TACAATTGGACCTTTTGTTGGCTTACTCGGTGCCTTCTGTTTCTCAATTCTGGGATTACT
CGTGCCTGTACTTATTGAAATGATTACATACTGGGATGAAGGATTTGGAAAATTGAACTG
GATAATTTGGAAAAATGTAATTGTTTGCATTTTTGGAATTCTTGCTCTTGTTTTTGGTTC
AAAGGATGCAATAGCTGATATTATGAAAATGTATAATGAAAACCCAAGTGCTGATAATGC
AACAACAATATTAGCTATCACAAATATGAATGAAATAGTAGAAGAACTCACCACACTATT
ACCAACTACTACAGGTGTTTGAAAAAAAGCAAGTCATAAACTCCGGCATCATTTAACGTA
TTTGAATTTTTTTCTCAATATAAATTTTCATCATATGCAGCGAATATTCTTTAAATAACA
TATTGTAGTTAAAATTAAGATGCTGCCTAGATAGGTAGATATAGGCTTTAGTTATTTTAA
AAAACTGCTTTTACAACTATAAAATGTTCAGGTTCAGCACAGAAAGTGTTAGGTTTTTGT
GATTTTCTAAGCTGATCAAAAACAAAAGTAAAAATGAATTAAAAGACTTGTTAAATTTTA
TATTTTTCTTCTTATTTTAGT
>g3681.t42 Gene=g3681 Length=205
MSGVTLVYILLGFVGYVKYGNEAKGSITLNLPIEDLAAQTVKILIALAVYCTFGLQFYVC
LEIGWDFIKDKFRKRPLLVNYMMRTVLVTAAVLLAVAVPTIGPFVGLLGAFCFSILGLLV
PVLIEMITYWDEGFGKLNWIIWKNVIVCIFGILALVFGSKDAIADIMKMYNENPSADNAT
TILAITNMNEIVEELTTLLPTTTGV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g3681.t42 | PANTHER | PTHR22950 | AMINO ACID TRANSPORTER | 1 | 170 | 4.3E-84 |
| 3 | g3681.t42 | PANTHER | PTHR22950:SF154 | PROTON-COUPLED AMINO ACID TRANSPORTER-LIKE PROTEIN PATHETIC | 1 | 170 | 4.3E-84 |
| 1 | g3681.t42 | Pfam | PF01490 | Transmembrane amino acid transporter protein | 1 | 160 | 8.2E-26 |
| 14 | g3681.t42 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 15 | g3681.t42 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 16 | g3681.t42 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 15 | - |
| 21 | g3681.t42 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 20 | - |
| 13 | g3681.t42 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 43 | - |
| 20 | g3681.t42 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 44 | 65 | - |
| 10 | g3681.t42 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 66 | 76 | - |
| 18 | g3681.t42 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 77 | 98 | - |
| 11 | g3681.t42 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 99 | 103 | - |
| 19 | g3681.t42 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 104 | 127 | - |
| 9 | g3681.t42 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 128 | 138 | - |
| 17 | g3681.t42 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 139 | 158 | - |
| 12 | g3681.t42 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 159 | 205 | - |
| 5 | g3681.t42 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 4 | 21 | - |
| 8 | g3681.t42 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 43 | 65 | - |
| 6 | g3681.t42 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 80 | 102 | - |
| 7 | g3681.t42 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 107 | 129 | - |
| 4 | g3681.t42 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 139 | 158 | - |
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.
