General information for g3681.t19
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.t19 | TSS | g3681.t19 | 27386206 | 27386206 |
| chr_3 | g3681 | g3681.t19 | isoform | g3681.t19 | 27386221 | 27394647 |
| chr_3 | g3681 | g3681.t19 | exon | g3681.t19.exon1 | 27386221 | 27386231 |
| chr_3 | g3681 | g3681.t19 | exon | g3681.t19.exon2 | 27390226 | 27390365 |
| chr_3 | g3681 | g3681.t19 | exon | g3681.t19.exon3 | 27391844 | 27391988 |
| chr_3 | g3681 | g3681.t19 | exon | g3681.t19.exon4 | 27392559 | 27393108 |
| chr_3 | g3681 | g3681.t19 | exon | g3681.t19.exon5 | 27393228 | 27393325 |
| chr_3 | g3681 | g3681.t19 | cds | g3681.t19.CDS1 | 27393259 | 27393325 |
| chr_3 | g3681 | g3681.t19 | exon | g3681.t19.exon6 | 27393449 | 27394647 |
| chr_3 | g3681 | g3681.t19 | cds | g3681.t19.CDS2 | 27393449 | 27394068 |
| chr_3 | g3681 | g3681.t19 | TTS | g3681.t19 | NA | NA |
Sequences
>g3681.t19 Gene=g3681 Length=2143
CGCCAACTGAAATGTAAGTTACTAAATCTTAAAAAGTCTTTACAAATTATTTAAAACAAA
TTTAATTTTCTTGAAAATAGGAATATACTGGTCCCCCACCTCAAGAACTCGAAACATTTA
TATCAAAAGACCAAAAGAATGGATCTTCAACGTACAAAATTGCACCCGCAACAAATGTCG
AGAAAGGAATTTTATCGGATTATGATCCTTTCAAAGAAAGGAAAGTAGATCATCCTACGT
CAGATATGGATACATTGACTCATTTATTGAAAGCATCACTTGGCACTGGAATATTGGCAA
TGCCATTGGCATTTAGCTATTCTGGTTTAGTGACAGGTATTTTTGCAACTATTCTGACGG
CGCTTATATGTACTCACTGCGCCTATATCCTTGTTAAATGCAGTCATTCATTATATTACC
GCACTCGAAGGTCAACAATGAACTTTTCTGAAGTAGCAGAAGCAGCTTGTTTAAATGGAC
CTGCGTGGGCACGTCCATGGGCACAATTTCTAAAGCATTTCATCAATTATGGTCTCTTCA
TTACATATTTTGGAACATGTTCCGTATATACAGTGATTATTGCTGAAAATTTTCAACAAA
TTATTCAACATTACACTGAATGGAATGTCGATGTTCGTGTTTATATTGCAATTTTATTAA
TCCCATTGATTTTATTGTCATGGGTACCAAATCTCAAGTATCTTGCACCATTCTCTTCTG
TGGCTAACATATTCATGGGAATTGGATTATTGATAACATTTTACTATTGCGTAACAGATA
TGCCAAACATTAGTGAACGTGAAATGCATACATCATTATTGCAAATCCCGCCATTCTTTG
GAATAACTATATTTAAATTAAGGCAATAGGAGTTGTAATGCCGCTTGAAAATTCTATGAA
AACACCTAAGCACTTCATTGGAATCTGTGGTGTATTAAATCAAGGTATGAGCGGTGTAAC
TTTGGTTTATATTCTACTCGGTTTCGTTGGTTATGTAAAATATGGAAATGAAGCAAAAGG
ATCAATAACATTGAATTTACCTATAGAGGATTTAGCAGCACAAACTGTGAAAATTTTAAT
TGCATTAGCTGTTTATTGTACATTTGGTCTTCAATTTTATGTCTGCCTTGAAATTGGATG
GGATTTTATTAAAGATAAATTTAGAAAACGTCCTTTGCTAGTTAACTACATGATGAGAAC
AGTTCTTGTTACTGCCGCTGTCTTACTTGCTGTCGCTGTGCCTACAATTGGACCTTTTGT
TGGCTTACTCGGTGCCTTCTGTTTCTCAATTCTGGGATTACTCGTGCCTGTACTTATTGA
AATGATTACATACTGGGATGAAGGATTTGGAAAATTGAACTGGATAATTTGGAAAAATGT
AATTGTTTGCATTTTTGGAATTCTTGCTCTTGTTTTTGGTTCAAAGGATGCAATAGCTGA
TATTATGAAAATGTATAATGAAAACCCAAGTGCTGATAATGCAACAACAATATTAGCTAT
CACAAATATGAATGAAATAGTAGAAGAACTCACCACACTATTACCAACTACTACAGGTGT
TTGAAAAAAAGCAAGTCATAAACTCCGGCATCATTTAACGTATTTGAATTTTTTTCTCAA
TATAAATTTTCATCATATGCAGCGAATATTCTTTAAATAACATATTGTAGTTAAAATTAA
GATGCTGCCTAGATAGGTAGATATAGGCTTTAGTTATTTTAAAAAACTGCTTTTACAACT
ATAAAATGTTCAGGTTCAGCACAGAAAGTGTTAGGTTTTTGTGATTTTCTAAGCTGATCA
AAAACAAAAGTAAAAATGAATTAAAAGACTTGTTAAATTTTATATTTTTCTTCTTATTTT
AGTAAAATTAAAGTAGTTTATCAGTTTATTATTATATCAATAAATCACTTGATTTCGAAA
TCCCATTAAAATTTTTTGATATAACTTTTAAAACTATCGGTTCTAACATTTGAAAGAATA
AAACAAAACTTTATAGAAATGAATTAAGAACTGTATTTTTGTGAAATTTCAGATTCGATT
TAAAACATCAAATTATCATAGTAGATTTTTTTTATACTTGATAAATCTGTCTCTATAGTT
AATACTATGGAATGAACAATTTTTTTATATATTTAATTCATTT
>g3681.t19 Gene=g3681 Length=228
MPLENSMKTPKHFIGICGVLNQGMSGVTLVYILLGFVGYVKYGNEAKGSITLNLPIEDLA
AQTVKILIALAVYCTFGLQFYVCLEIGWDFIKDKFRKRPLLVNYMMRTVLVTAAVLLAVA
VPTIGPFVGLLGAFCFSILGLLVPVLIEMITYWDEGFGKLNWIIWKNVIVCIFGILALVF
GSKDAIADIMKMYNENPSADNATTILAITNMNEIVEELTTLLPTTTGV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g3681.t19 | PANTHER | PTHR22950 | AMINO ACID TRANSPORTER | 1 | 193 | 5.8E-99 |
| 3 | g3681.t19 | PANTHER | PTHR22950:SF154 | PROTON-COUPLED AMINO ACID TRANSPORTER-LIKE PROTEIN PATHETIC | 1 | 193 | 5.8E-99 |
| 1 | g3681.t19 | Pfam | PF01490 | Transmembrane amino acid transporter protein | 2 | 183 | 1.9E-32 |
| 8 | g3681.t19 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 15 | g3681.t19 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 39 | - |
| 11 | g3681.t19 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 40 | 58 | - |
| 18 | g3681.t19 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 59 | 84 | - |
| 10 | g3681.t19 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 85 | 103 | - |
| 14 | g3681.t19 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 104 | 124 | - |
| 13 | g3681.t19 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 125 | 129 | - |
| 17 | g3681.t19 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 130 | 150 | - |
| 9 | g3681.t19 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 151 | 161 | - |
| 16 | g3681.t19 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 162 | 181 | - |
| 12 | g3681.t19 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 182 | 228 | - |
| 6 | g3681.t19 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 35 | - |
| 5 | g3681.t19 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 66 | 88 | - |
| 7 | g3681.t19 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 109 | 143 | - |
| 4 | g3681.t19 | 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. There were no conditions that were differentially expressed