General information for g3681.t20
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.t20 | TSS | g3681.t20 | 27386206 | 27386206 |
| chr_3 | g3681 | g3681.t20 | isoform | g3681.t20 | 27386231 | 27394367 |
| chr_3 | g3681 | g3681.t20 | exon | g3681.t20.exon1 | 27386231 | 27386316 |
| chr_3 | g3681 | g3681.t20 | exon | g3681.t20.exon2 | 27390295 | 27390365 |
| chr_3 | g3681 | g3681.t20 | exon | g3681.t20.exon3 | 27391844 | 27391988 |
| chr_3 | g3681 | g3681.t20 | exon | g3681.t20.exon4 | 27392559 | 27393108 |
| chr_3 | g3681 | g3681.t20 | exon | g3681.t20.exon5 | 27393228 | 27393325 |
| chr_3 | g3681 | g3681.t20 | cds | g3681.t20.CDS1 | 27393259 | 27393325 |
| chr_3 | g3681 | g3681.t20 | exon | g3681.t20.exon6 | 27393449 | 27394367 |
| chr_3 | g3681 | g3681.t20 | cds | g3681.t20.CDS2 | 27393449 | 27394068 |
| chr_3 | g3681 | g3681.t20 | TTS | g3681.t20 | 27394504 | 27394504 |
Sequences
>g3681.t20 Gene=g3681 Length=1869
AGTAGAAAGAAATTTATTCTGTTAATTATTTTCTCTCTTTATACCGTTTCATATCCATTT
TTGTGATAAAAAATATAAAATAAAAAGAATATACTGGTCCCCCACCTCAAGAACTCGAAA
CATTTATATCAAAAGACCAAAAGAATGGATCTTCAACGTACAAAATTGCACCCGCAACAA
ATGTCGAGAAAGGAATTTTATCGGATTATGATCCTTTCAAAGAAAGGAAAGTAGATCATC
CTACGTCAGATATGGATACATTGACTCATTTATTGAAAGCATCACTTGGCACTGGAATAT
TGGCAATGCCATTGGCATTTAGCTATTCTGGTTTAGTGACAGGTATTTTTGCAACTATTC
TGACGGCGCTTATATGTACTCACTGCGCCTATATCCTTGTTAAATGCAGTCATTCATTAT
ATTACCGCACTCGAAGGTCAACAATGAACTTTTCTGAAGTAGCAGAAGCAGCTTGTTTAA
ATGGACCTGCGTGGGCACGTCCATGGGCACAATTTCTAAAGCATTTCATCAATTATGGTC
TCTTCATTACATATTTTGGAACATGTTCCGTATATACAGTGATTATTGCTGAAAATTTTC
AACAAATTATTCAACATTACACTGAATGGAATGTCGATGTTCGTGTTTATATTGCAATTT
TATTAATCCCATTGATTTTATTGTCATGGGTACCAAATCTCAAGTATCTTGCACCATTCT
CTTCTGTGGCTAACATATTCATGGGAATTGGATTATTGATAACATTTTACTATTGCGTAA
CAGATATGCCAAACATTAGTGAACGTGAAATGCATACATCATTATTGCAAATCCCGCCAT
TCTTTGGAATAACTATATTTAAATTAAGGCAATAGGAGTTGTAATGCCGCTTGAAAATTC
TATGAAAACACCTAAGCACTTCATTGGAATCTGTGGTGTATTAAATCAAGGTATGAGCGG
TGTAACTTTGGTTTATATTCTACTCGGTTTCGTTGGTTATGTAAAATATGGAAATGAAGC
AAAAGGATCAATAACATTGAATTTACCTATAGAGGATTTAGCAGCACAAACTGTGAAAAT
TTTAATTGCATTAGCTGTTTATTGTACATTTGGTCTTCAATTTTATGTCTGCCTTGAAAT
TGGATGGGATTTTATTAAAGATAAATTTAGAAAACGTCCTTTGCTAGTTAACTACATGAT
GAGAACAGTTCTTGTTACTGCCGCTGTCTTACTTGCTGTCGCTGTGCCTACAATTGGACC
TTTTGTTGGCTTACTCGGTGCCTTCTGTTTCTCAATTCTGGGATTACTCGTGCCTGTACT
TATTGAAATGATTACATACTGGGATGAAGGATTTGGAAAATTGAACTGGATAATTTGGAA
AAATGTAATTGTTTGCATTTTTGGAATTCTTGCTCTTGTTTTTGGTTCAAAGGATGCAAT
AGCTGATATTATGAAAATGTATAATGAAAACCCAAGTGCTGATAATGCAACAACAATATT
AGCTATCACAAATATGAATGAAATAGTAGAAGAACTCACCACACTATTACCAACTACTAC
AGGTGTTTGAAAAAAAGCAAGTCATAAACTCCGGCATCATTTAACGTATTTGAATTTTTT
TCTCAATATAAATTTTCATCATATGCAGCGAATATTCTTTAAATAACATATTGTAGTTAA
AATTAAGATGCTGCCTAGATAGGTAGATATAGGCTTTAGTTATTTTAAAAAACTGCTTTT
ACAACTATAAAATGTTCAGGTTCAGCACAGAAAGTGTTAGGTTTTTGTGATTTTCTAAGC
TGATCAAAAACAAAAGTAAAAATGAATTAAAAGACTTGTTAAATTTTATATTTTTCTTCT
TATTTTAGT
>g3681.t20 Gene=g3681 Length=228
MPLENSMKTPKHFIGICGVLNQGMSGVTLVYILLGFVGYVKYGNEAKGSITLNLPIEDLA
AQTVKILIALAVYCTFGLQFYVCLEIGWDFIKDKFRKRPLLVNYMMRTVLVTAAVLLAVA
VPTIGPFVGLLGAFCFSILGLLVPVLIEMITYWDEGFGKLNWIIWKNVIVCIFGILALVF
GSKDAIADIMKMYNENPSADNATTILAITNMNEIVEELTTLLPTTTGV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g3681.t20 | PANTHER | PTHR22950 | AMINO ACID TRANSPORTER | 1 | 193 | 5.8E-99 |
| 3 | g3681.t20 | PANTHER | PTHR22950:SF154 | PROTON-COUPLED AMINO ACID TRANSPORTER-LIKE PROTEIN PATHETIC | 1 | 193 | 5.8E-99 |
| 1 | g3681.t20 | Pfam | PF01490 | Transmembrane amino acid transporter protein | 2 | 183 | 1.9E-32 |
| 8 | g3681.t20 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 15 | g3681.t20 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 39 | - |
| 11 | g3681.t20 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 40 | 58 | - |
| 18 | g3681.t20 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 59 | 84 | - |
| 10 | g3681.t20 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 85 | 103 | - |
| 14 | g3681.t20 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 104 | 124 | - |
| 13 | g3681.t20 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 125 | 129 | - |
| 17 | g3681.t20 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 130 | 150 | - |
| 9 | g3681.t20 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 151 | 161 | - |
| 16 | g3681.t20 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 162 | 181 | - |
| 12 | g3681.t20 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 182 | 228 | - |
| 6 | g3681.t20 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 35 | - |
| 5 | g3681.t20 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 66 | 88 | - |
| 7 | g3681.t20 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 109 | 143 | - |
| 4 | g3681.t20 | 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.
