General information for g3681.t13
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.t13 | TSS | g3681.t13 | 27386206 | 27386206 |
| chr_3 | g3681 | g3681.t13 | isoform | g3681.t13 | 27386221 | 27394647 |
| chr_3 | g3681 | g3681.t13 | exon | g3681.t13.exon1 | 27386221 | 27386320 |
| chr_3 | g3681 | g3681.t13 | exon | g3681.t13.exon2 | 27390194 | 27390227 |
| chr_3 | g3681 | g3681.t13 | exon | g3681.t13.exon3 | 27390295 | 27390365 |
| chr_3 | g3681 | g3681.t13 | exon | g3681.t13.exon4 | 27391844 | 27391988 |
| chr_3 | g3681 | g3681.t13 | exon | g3681.t13.exon5 | 27392559 | 27393185 |
| chr_3 | g3681 | g3681.t13 | cds | g3681.t13.CDS1 | 27393180 | 27393185 |
| chr_3 | g3681 | g3681.t13 | exon | g3681.t13.exon6 | 27393244 | 27393325 |
| chr_3 | g3681 | g3681.t13 | cds | g3681.t13.CDS2 | 27393244 | 27393325 |
| chr_3 | g3681 | g3681.t13 | exon | g3681.t13.exon7 | 27393449 | 27394647 |
| chr_3 | g3681 | g3681.t13 | cds | g3681.t13.CDS3 | 27393449 | 27394068 |
| chr_3 | g3681 | g3681.t13 | TTS | g3681.t13 | NA | NA |
Sequences
>g3681.t13 Gene=g3681 Length=2258
CGCCAACTGAAGTAGAAAGAAATTTATTCTGTTAATTATTTTCTCTCTTTATACCGTTTC
ATATCCATTTTTGTGATAAAAAATATAAAATAAAAAGTGAATTAATTTAAAAAAGCAACG
CTAAAATGGTAAATGAATATACTGGTCCCCCACCTCAAGAACTCGAAACATTTATATCAA
AAGACCAAAAGAATGGATCTTCAACGTACAAAATTGCACCCGCAACAAATGTCGAGAAAG
GAATTTTATCGGATTATGATCCTTTCAAAGAAAGGAAAGTAGATCATCCTACGTCAGATA
TGGATACATTGACTCATTTATTGAAAGCATCACTTGGCACTGGAATATTGGCAATGCCAT
TGGCATTTAGCTATTCTGGTTTAGTGACAGGTATTTTTGCAACTATTCTGACGGCGCTTA
TATGTACTCACTGCGCCTATATCCTTGTTAAATGCAGTCATTCATTATATTACCGCACTC
GAAGGTCAACAATGAACTTTTCTGAAGTAGCAGAAGCAGCTTGTTTAAATGGACCTGCGT
GGGCACGTCCATGGGCACAATTTCTAAAGCATTTCATCAATTATGGTCTCTTCATTACAT
ATTTTGGAACATGTTCCGTATATACAGTGATTATTGCTGAAAATTTTCAACAAATTATTC
AACATTACACTGAATGGAATGTCGATGTTCGTGTTTATATTGCAATTTTATTAATCCCAT
TGATTTTATTGTCATGGGTACCAAATCTCAAGTATCTTGCACCATTCTCTTCTGTGGCTA
ACATATTCATGGGAATTGGATTATTGATAACATTTTACTATTGCGTAACAGATATGCCAA
ACATTAGTGAACGTGAAATGCATACATCATTATTGCAAATCCCGCCATTCTTTGGAATAA
GTAAGTTTTATTCCTTATTATAGTTTTTATTATTAATTTTATTTTTTACTTTTAATAAAG
CTATATTTGCTATGGAGGCAATAGGAGTTGTAATGCCGCTTGAAAATTCTATGAAAACAC
CTAAGCACTTCATTGGAATCTGTGGTGTATTAAATCAAGGTATGAGCGGTGTAACTTTGG
TTTATATTCTACTCGGTTTCGTTGGTTATGTAAAATATGGAAATGAAGCAAAAGGATCAA
TAACATTGAATTTACCTATAGAGGATTTAGCAGCACAAACTGTGAAAATTTTAATTGCAT
TAGCTGTTTATTGTACATTTGGTCTTCAATTTTATGTCTGCCTTGAAATTGGATGGGATT
TTATTAAAGATAAATTTAGAAAACGTCCTTTGCTAGTTAACTACATGATGAGAACAGTTC
TTGTTACTGCCGCTGTCTTACTTGCTGTCGCTGTGCCTACAATTGGACCTTTTGTTGGCT
TACTCGGTGCCTTCTGTTTCTCAATTCTGGGATTACTCGTGCCTGTACTTATTGAAATGA
TTACATACTGGGATGAAGGATTTGGAAAATTGAACTGGATAATTTGGAAAAATGTAATTG
TTTGCATTTTTGGAATTCTTGCTCTTGTTTTTGGTTCAAAGGATGCAATAGCTGATATTA
TGAAAATGTATAATGAAAACCCAAGTGCTGATAATGCAACAACAATATTAGCTATCACAA
ATATGAATGAAATAGTAGAAGAACTCACCACACTATTACCAACTACTACAGGTGTTTGAA
AAAAAGCAAGTCATAAACTCCGGCATCATTTAACGTATTTGAATTTTTTTCTCAATATAA
ATTTTCATCATATGCAGCGAATATTCTTTAAATAACATATTGTAGTTAAAATTAAGATGC
TGCCTAGATAGGTAGATATAGGCTTTAGTTATTTTAAAAAACTGCTTTTACAACTATAAA
ATGTTCAGGTTCAGCACAGAAAGTGTTAGGTTTTTGTGATTTTCTAAGCTGATCAAAAAC
AAAAGTAAAAATGAATTAAAAGACTTGTTAAATTTTATATTTTTCTTCTTATTTTAGTAA
AATTAAAGTAGTTTATCAGTTTATTATTATATCAATAAATCACTTGATTTCGAAATCCCA
TTAAAATTTTTTGATATAACTTTTAAAACTATCGGTTCTAACATTTGAAAGAATAAAACA
AAACTTTATAGAAATGAATTAAGAACTGTATTTTTGTGAAATTTCAGATTCGATTTAAAA
CATCAAATTATCATAGTAGATTTTTTTTATACTTGATAAATCTGTCTCTATAGTTAATAC
TATGGAATGAACAATTTTTTTATATATTTAATTCATTT
>g3681.t13 Gene=g3681 Length=235
MEAIGVVMPLENSMKTPKHFIGICGVLNQGMSGVTLVYILLGFVGYVKYGNEAKGSITLN
LPIEDLAAQTVKILIALAVYCTFGLQFYVCLEIGWDFIKDKFRKRPLLVNYMMRTVLVTA
AVLLAVAVPTIGPFVGLLGAFCFSILGLLVPVLIEMITYWDEGFGKLNWIIWKNVIVCIF
GILALVFGSKDAIADIMKMYNENPSADNATTILAITNMNEIVEELTTLLPTTTGV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g3681.t13 | PANTHER | PTHR22950 | AMINO ACID TRANSPORTER | 1 | 200 | 8.7E-104 |
| 3 | g3681.t13 | PANTHER | PTHR22950:SF154 | PROTON-COUPLED AMINO ACID TRANSPORTER-LIKE PROTEIN PATHETIC | 1 | 200 | 8.7E-104 |
| 1 | g3681.t13 | Pfam | PF01490 | Transmembrane amino acid transporter protein | 4 | 190 | 1.8E-33 |
| 9 | g3681.t13 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 19 | - |
| 16 | g3681.t13 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 46 | - |
| 13 | g3681.t13 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 47 | 65 | - |
| 15 | g3681.t13 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 66 | 91 | - |
| 10 | g3681.t13 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 92 | 110 | - |
| 17 | g3681.t13 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 111 | 131 | - |
| 11 | g3681.t13 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 132 | 136 | - |
| 14 | g3681.t13 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 137 | 157 | - |
| 8 | g3681.t13 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 158 | 168 | - |
| 18 | g3681.t13 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 169 | 188 | - |
| 12 | g3681.t13 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 189 | 235 | - |
| 6 | g3681.t13 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 42 | - |
| 7 | g3681.t13 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 73 | 95 | - |
| 5 | g3681.t13 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 116 | 150 | - |
| 4 | g3681.t13 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 170 | 189 | - |
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.
