General information for g3681.t12
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.t12 | TSS | g3681.t12 | 27386206 | 27386206 |
| chr_3 | g3681 | g3681.t12 | isoform | g3681.t12 | 27386221 | 27394647 |
| chr_3 | g3681 | g3681.t12 | exon | g3681.t12.exon1 | 27386221 | 27386316 |
| chr_3 | g3681 | g3681.t12 | exon | g3681.t12.exon2 | 27390194 | 27390227 |
| chr_3 | g3681 | g3681.t12 | exon | g3681.t12.exon3 | 27390295 | 27390365 |
| chr_3 | g3681 | g3681.t12 | exon | g3681.t12.exon4 | 27391844 | 27391988 |
| chr_3 | g3681 | g3681.t12 | exon | g3681.t12.exon5 | 27392559 | 27393108 |
| chr_3 | g3681 | g3681.t12 | exon | g3681.t12.exon6 | 27393229 | 27393325 |
| chr_3 | g3681 | g3681.t12 | cds | g3681.t12.CDS1 | 27393259 | 27393325 |
| chr_3 | g3681 | g3681.t12 | exon | g3681.t12.exon7 | 27393449 | 27394647 |
| chr_3 | g3681 | g3681.t12 | cds | g3681.t12.CDS2 | 27393449 | 27394068 |
| chr_3 | g3681 | g3681.t12 | TTS | g3681.t12 | NA | NA |
Sequences
>g3681.t12 Gene=g3681 Length=2192
CGCCAACTGAAGTAGAAAGAAATTTATTCTGTTAATTATTTTCTCTCTTTATACCGTTTC
ATATCCATTTTTGTGATAAAAAATATAAAATAAAAAATTAATTTAAAAAAGCAACGCTAA
AATGGTAAATGAATATACTGGTCCCCCACCTCAAGAACTCGAAACATTTATATCAAAAGA
CCAAAAGAATGGATCTTCAACGTACAAAATTGCACCCGCAACAAATGTCGAGAAAGGAAT
TTTATCGGATTATGATCCTTTCAAAGAAAGGAAAGTAGATCATCCTACGTCAGATATGGA
TACATTGACTCATTTATTGAAAGCATCACTTGGCACTGGAATATTGGCAATGCCATTGGC
ATTTAGCTATTCTGGTTTAGTGACAGGTATTTTTGCAACTATTCTGACGGCGCTTATATG
TACTCACTGCGCCTATATCCTTGTTAAATGCAGTCATTCATTATATTACCGCACTCGAAG
GTCAACAATGAACTTTTCTGAAGTAGCAGAAGCAGCTTGTTTAAATGGACCTGCGTGGGC
ACGTCCATGGGCACAATTTCTAAAGCATTTCATCAATTATGGTCTCTTCATTACATATTT
TGGAACATGTTCCGTATATACAGTGATTATTGCTGAAAATTTTCAACAAATTATTCAACA
TTACACTGAATGGAATGTCGATGTTCGTGTTTATATTGCAATTTTATTAATCCCATTGAT
TTTATTGTCATGGGTACCAAATCTCAAGTATCTTGCACCATTCTCTTCTGTGGCTAACAT
ATTCATGGGAATTGGATTATTGATAACATTTTACTATTGCGTAACAGATATGCCAAACAT
TAGTGAACGTGAAATGCATACATCATTATTGCAAATCCCGCCATTCTTTGGAATAATATA
TTTAAATTAAGGCAATAGGAGTTGTAATGCCGCTTGAAAATTCTATGAAAACACCTAAGC
ACTTCATTGGAATCTGTGGTGTATTAAATCAAGGTATGAGCGGTGTAACTTTGGTTTATA
TTCTACTCGGTTTCGTTGGTTATGTAAAATATGGAAATGAAGCAAAAGGATCAATAACAT
TGAATTTACCTATAGAGGATTTAGCAGCACAAACTGTGAAAATTTTAATTGCATTAGCTG
TTTATTGTACATTTGGTCTTCAATTTTATGTCTGCCTTGAAATTGGATGGGATTTTATTA
AAGATAAATTTAGAAAACGTCCTTTGCTAGTTAACTACATGATGAGAACAGTTCTTGTTA
CTGCCGCTGTCTTACTTGCTGTCGCTGTGCCTACAATTGGACCTTTTGTTGGCTTACTCG
GTGCCTTCTGTTTCTCAATTCTGGGATTACTCGTGCCTGTACTTATTGAAATGATTACAT
ACTGGGATGAAGGATTTGGAAAATTGAACTGGATAATTTGGAAAAATGTAATTGTTTGCA
TTTTTGGAATTCTTGCTCTTGTTTTTGGTTCAAAGGATGCAATAGCTGATATTATGAAAA
TGTATAATGAAAACCCAAGTGCTGATAATGCAACAACAATATTAGCTATCACAAATATGA
ATGAAATAGTAGAAGAACTCACCACACTATTACCAACTACTACAGGTGTTTGAAAAAAAG
CAAGTCATAAACTCCGGCATCATTTAACGTATTTGAATTTTTTTCTCAATATAAATTTTC
ATCATATGCAGCGAATATTCTTTAAATAACATATTGTAGTTAAAATTAAGATGCTGCCTA
GATAGGTAGATATAGGCTTTAGTTATTTTAAAAAACTGCTTTTACAACTATAAAATGTTC
AGGTTCAGCACAGAAAGTGTTAGGTTTTTGTGATTTTCTAAGCTGATCAAAAACAAAAGT
AAAAATGAATTAAAAGACTTGTTAAATTTTATATTTTTCTTCTTATTTTAGTAAAATTAA
AGTAGTTTATCAGTTTATTATTATATCAATAAATCACTTGATTTCGAAATCCCATTAAAA
TTTTTTGATATAACTTTTAAAACTATCGGTTCTAACATTTGAAAGAATAAAACAAAACTT
TATAGAAATGAATTAAGAACTGTATTTTTGTGAAATTTCAGATTCGATTTAAAACATCAA
ATTATCATAGTAGATTTTTTTTATACTTGATAAATCTGTCTCTATAGTTAATACTATGGA
ATGAACAATTTTTTTATATATTTAATTCATTT
>g3681.t12 Gene=g3681 Length=228
MPLENSMKTPKHFIGICGVLNQGMSGVTLVYILLGFVGYVKYGNEAKGSITLNLPIEDLA
AQTVKILIALAVYCTFGLQFYVCLEIGWDFIKDKFRKRPLLVNYMMRTVLVTAAVLLAVA
VPTIGPFVGLLGAFCFSILGLLVPVLIEMITYWDEGFGKLNWIIWKNVIVCIFGILALVF
GSKDAIADIMKMYNENPSADNATTILAITNMNEIVEELTTLLPTTTGV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g3681.t12 | PANTHER | PTHR22950 | AMINO ACID TRANSPORTER | 1 | 193 | 5.8E-99 |
| 3 | g3681.t12 | PANTHER | PTHR22950:SF154 | PROTON-COUPLED AMINO ACID TRANSPORTER-LIKE PROTEIN PATHETIC | 1 | 193 | 5.8E-99 |
| 1 | g3681.t12 | Pfam | PF01490 | Transmembrane amino acid transporter protein | 2 | 183 | 1.9E-32 |
| 8 | g3681.t12 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 15 | g3681.t12 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 39 | - |
| 11 | g3681.t12 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 40 | 58 | - |
| 18 | g3681.t12 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 59 | 84 | - |
| 10 | g3681.t12 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 85 | 103 | - |
| 14 | g3681.t12 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 104 | 124 | - |
| 13 | g3681.t12 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 125 | 129 | - |
| 17 | g3681.t12 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 130 | 150 | - |
| 9 | g3681.t12 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 151 | 161 | - |
| 16 | g3681.t12 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 162 | 181 | - |
| 12 | g3681.t12 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 182 | 228 | - |
| 6 | g3681.t12 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 35 | - |
| 5 | g3681.t12 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 66 | 88 | - |
| 7 | g3681.t12 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 109 | 143 | - |
| 4 | g3681.t12 | 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.
