General information for g3681.t3
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.t3 | TSS | g3681.t3 | 27385902 | 27385902 |
| chr_3 | g3681 | g3681.t3 | isoform | g3681.t3 | 27386048 | 27393108 |
| chr_3 | g3681 | g3681.t3 | exon | g3681.t3.exon1 | 27386048 | 27386061 |
| chr_3 | g3681 | g3681.t3 | exon | g3681.t3.exon2 | 27390194 | 27390227 |
| chr_3 | g3681 | g3681.t3 | cds | g3681.t3.CDS1 | 27390219 | 27390227 |
| chr_3 | g3681 | g3681.t3 | exon | g3681.t3.exon3 | 27390295 | 27390365 |
| chr_3 | g3681 | g3681.t3 | cds | g3681.t3.CDS2 | 27390295 | 27390365 |
| chr_3 | g3681 | g3681.t3 | exon | g3681.t3.exon4 | 27391844 | 27391988 |
| chr_3 | g3681 | g3681.t3 | cds | g3681.t3.CDS3 | 27391844 | 27391988 |
| chr_3 | g3681 | g3681.t3 | exon | g3681.t3.exon5 | 27392559 | 27393108 |
| chr_3 | g3681 | g3681.t3 | cds | g3681.t3.CDS4 | 27392559 | 27393107 |
| chr_3 | g3681 | g3681.t3 | TTS | g3681.t3 | NA | NA |
Sequences
>g3681.t3 Gene=g3681 Length=814
TAATATTGAAAGAAATTAATTTAAAAAAGCAACGCTAAAATGGTAAATGAATATACTGGT
CCCCCACCTCAAGAACTCGAAACATTTATATCAAAAGACCAAAAGAATGGATCTTCAACG
TACAAAATTGCACCCGCAACAAATGTCGAGAAAGGAATTTTATCGGATTATGATCCTTTC
AAAGAAAGGAAAGTAGATCATCCTACGTCAGATATGGATACATTGACTCATTTATTGAAA
GCATCACTTGGCACTGGAATATTGGCAATGCCATTGGCATTTAGCTATTCTGGTTTAGTG
ACAGGTATTTTTGCAACTATTCTGACGGCGCTTATATGTACTCACTGCGCCTATATCCTT
GTTAAATGCAGTCATTCATTATATTACCGCACTCGAAGGTCAACAATGAACTTTTCTGAA
GTAGCAGAAGCAGCTTGTTTAAATGGACCTGCGTGGGCACGTCCATGGGCACAATTTCTA
AAGCATTTCATCAATTATGGTCTCTTCATTACATATTTTGGAACATGTTCCGTATATACA
GTGATTATTGCTGAAAATTTTCAACAAATTATTCAACATTACACTGAATGGAATGTCGAT
GTTCGTGTTTATATTGCAATTTTATTAATCCCATTGATTTTATTGTCATGGGTACCAAAT
CTCAAGTATCTTGCACCATTCTCTTCTGTGGCTAACATATTCATGGGAATTGGATTATTG
ATAACATTTTACTATTGCGTAACAGATATGCCAAACATTAGTGAACGTGAAATGCATACA
TCATTATTGCAAATCCCGCCATTCTTTGGAATAA
>g3681.t3 Gene=g3681 Length=258
MVNEYTGPPPQELETFISKDQKNGSSTYKIAPATNVEKGILSDYDPFKERKVDHPTSDMD
TLTHLLKASLGTGILAMPLAFSYSGLVTGIFATILTALICTHCAYILVKCSHSLYYRTRR
STMNFSEVAEAACLNGPAWARPWAQFLKHFINYGLFITYFGTCSVYTVIIAENFQQIIQH
YTEWNVDVRVYIAILLIPLILLSWVPNLKYLAPFSSVANIFMGIGLLITFYYCVTDMPNI
SEREMHTSLLQIPPFFGI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g3681.t3 | PANTHER | PTHR22950 | AMINO ACID TRANSPORTER | 9 | 258 | 8.0E-103 |
| 3 | g3681.t3 | PANTHER | PTHR22950:SF154 | PROTON-COUPLED AMINO ACID TRANSPORTER-LIKE PROTEIN PATHETIC | 9 | 258 | 8.0E-103 |
| 1 | g3681.t3 | Pfam | PF01490 | Transmembrane amino acid transporter protein | 55 | 244 | 1.7E-30 |
| 10 | g3681.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 85 | - |
| 16 | g3681.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 86 | 108 | - |
| 11 | g3681.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 109 | 149 | - |
| 15 | g3681.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 150 | 174 | - |
| 9 | g3681.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 175 | 185 | - |
| 13 | g3681.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 186 | 205 | - |
| 12 | g3681.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 206 | 210 | - |
| 14 | g3681.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 211 | 234 | - |
| 8 | g3681.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 235 | 258 | - |
| 5 | g3681.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 86 | 108 | - |
| 6 | g3681.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 149 | 171 | - |
| 4 | g3681.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 186 | 205 | - |
| 7 | g3681.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 210 | 232 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
## Warning: Removed 1 row(s) containing missing values (geom_path).
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.
