General information for g3681.t25
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.t25 | TSS | g3681.t25 | 27386206 | 27386206 |
| chr_3 | g3681 | g3681.t25 | isoform | g3681.t25 | 27386294 | 27394367 |
| chr_3 | g3681 | g3681.t25 | exon | g3681.t25.exon1 | 27386294 | 27386316 |
| chr_3 | g3681 | g3681.t25 | exon | g3681.t25.exon2 | 27390261 | 27390365 |
| chr_3 | g3681 | g3681.t25 | exon | g3681.t25.exon3 | 27391844 | 27391988 |
| chr_3 | g3681 | g3681.t25 | exon | g3681.t25.exon4 | 27392559 | 27393108 |
| chr_3 | g3681 | g3681.t25 | exon | g3681.t25.exon5 | 27393228 | 27393325 |
| chr_3 | g3681 | g3681.t25 | cds | g3681.t25.CDS1 | 27393259 | 27393325 |
| chr_3 | g3681 | g3681.t25 | exon | g3681.t25.exon6 | 27393449 | 27394367 |
| chr_3 | g3681 | g3681.t25 | cds | g3681.t25.CDS2 | 27393449 | 27394068 |
| chr_3 | g3681 | g3681.t25 | TTS | g3681.t25 | 27394504 | 27394504 |
Sequences
>g3681.t25 Gene=g3681 Length=1840
TGATAAAAAATATAAAATAAAAATTATTTAAAACAAATTTAATTTTCTTGAAAATAGGAA
TATACTGGTCCCCCACCTCAAGAACTCGAAACATTTATATCAAAAGACCAAAAGAATGGA
TCTTCAACGTACAAAATTGCACCCGCAACAAATGTCGAGAAAGGAATTTTATCGGATTAT
GATCCTTTCAAAGAAAGGAAAGTAGATCATCCTACGTCAGATATGGATACATTGACTCAT
TTATTGAAAGCATCACTTGGCACTGGAATATTGGCAATGCCATTGGCATTTAGCTATTCT
GGTTTAGTGACAGGTATTTTTGCAACTATTCTGACGGCGCTTATATGTACTCACTGCGCC
TATATCCTTGTTAAATGCAGTCATTCATTATATTACCGCACTCGAAGGTCAACAATGAAC
TTTTCTGAAGTAGCAGAAGCAGCTTGTTTAAATGGACCTGCGTGGGCACGTCCATGGGCA
CAATTTCTAAAGCATTTCATCAATTATGGTCTCTTCATTACATATTTTGGAACATGTTCC
GTATATACAGTGATTATTGCTGAAAATTTTCAACAAATTATTCAACATTACACTGAATGG
AATGTCGATGTTCGTGTTTATATTGCAATTTTATTAATCCCATTGATTTTATTGTCATGG
GTACCAAATCTCAAGTATCTTGCACCATTCTCTTCTGTGGCTAACATATTCATGGGAATT
GGATTATTGATAACATTTTACTATTGCGTAACAGATATGCCAAACATTAGTGAACGTGAA
ATGCATACATCATTATTGCAAATCCCGCCATTCTTTGGAATAACTATATTTAAATTAAGG
CAATAGGAGTTGTAATGCCGCTTGAAAATTCTATGAAAACACCTAAGCACTTCATTGGAA
TCTGTGGTGTATTAAATCAAGGTATGAGCGGTGTAACTTTGGTTTATATTCTACTCGGTT
TCGTTGGTTATGTAAAATATGGAAATGAAGCAAAAGGATCAATAACATTGAATTTACCTA
TAGAGGATTTAGCAGCACAAACTGTGAAAATTTTAATTGCATTAGCTGTTTATTGTACAT
TTGGTCTTCAATTTTATGTCTGCCTTGAAATTGGATGGGATTTTATTAAAGATAAATTTA
GAAAACGTCCTTTGCTAGTTAACTACATGATGAGAACAGTTCTTGTTACTGCCGCTGTCT
TACTTGCTGTCGCTGTGCCTACAATTGGACCTTTTGTTGGCTTACTCGGTGCCTTCTGTT
TCTCAATTCTGGGATTACTCGTGCCTGTACTTATTGAAATGATTACATACTGGGATGAAG
GATTTGGAAAATTGAACTGGATAATTTGGAAAAATGTAATTGTTTGCATTTTTGGAATTC
TTGCTCTTGTTTTTGGTTCAAAGGATGCAATAGCTGATATTATGAAAATGTATAATGAAA
ACCCAAGTGCTGATAATGCAACAACAATATTAGCTATCACAAATATGAATGAAATAGTAG
AAGAACTCACCACACTATTACCAACTACTACAGGTGTTTGAAAAAAAGCAAGTCATAAAC
TCCGGCATCATTTAACGTATTTGAATTTTTTTCTCAATATAAATTTTCATCATATGCAGC
GAATATTCTTTAAATAACATATTGTAGTTAAAATTAAGATGCTGCCTAGATAGGTAGATA
TAGGCTTTAGTTATTTTAAAAAACTGCTTTTACAACTATAAAATGTTCAGGTTCAGCACA
GAAAGTGTTAGGTTTTTGTGATTTTCTAAGCTGATCAAAAACAAAAGTAAAAATGAATTA
AAAGACTTGTTAAATTTTATATTTTTCTTCTTATTTTAGT
>g3681.t25 Gene=g3681 Length=228
MPLENSMKTPKHFIGICGVLNQGMSGVTLVYILLGFVGYVKYGNEAKGSITLNLPIEDLA
AQTVKILIALAVYCTFGLQFYVCLEIGWDFIKDKFRKRPLLVNYMMRTVLVTAAVLLAVA
VPTIGPFVGLLGAFCFSILGLLVPVLIEMITYWDEGFGKLNWIIWKNVIVCIFGILALVF
GSKDAIADIMKMYNENPSADNATTILAITNMNEIVEELTTLLPTTTGV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g3681.t25 | PANTHER | PTHR22950 | AMINO ACID TRANSPORTER | 1 | 193 | 5.8E-99 |
| 3 | g3681.t25 | PANTHER | PTHR22950:SF154 | PROTON-COUPLED AMINO ACID TRANSPORTER-LIKE PROTEIN PATHETIC | 1 | 193 | 5.8E-99 |
| 1 | g3681.t25 | Pfam | PF01490 | Transmembrane amino acid transporter protein | 2 | 183 | 1.9E-32 |
| 8 | g3681.t25 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 15 | g3681.t25 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 39 | - |
| 11 | g3681.t25 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 40 | 58 | - |
| 18 | g3681.t25 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 59 | 84 | - |
| 10 | g3681.t25 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 85 | 103 | - |
| 14 | g3681.t25 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 104 | 124 | - |
| 13 | g3681.t25 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 125 | 129 | - |
| 17 | g3681.t25 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 130 | 150 | - |
| 9 | g3681.t25 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 151 | 161 | - |
| 16 | g3681.t25 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 162 | 181 | - |
| 12 | g3681.t25 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 182 | 228 | - |
| 6 | g3681.t25 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 35 | - |
| 5 | g3681.t25 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 66 | 88 | - |
| 7 | g3681.t25 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 109 | 143 | - |
| 4 | g3681.t25 | 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.
