General information for g12851.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Proton-coupled amino acid transporter-like protein pathetic.
Parent gene
- The parent gene g12851 is located on chr_1: 26534794..26539155 (- 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_1 | g12851 | g12851.t1 | isoform | g12851.t1 | 26534794 | 26539155 |
| chr_1 | g12851 | g12851.t1 | exon | g12851.t1.exon1 | 26534794 | 26535057 |
| chr_1 | g12851 | g12851.t1 | cds | g12851.t1.CDS1 | 26534794 | 26535057 |
| chr_1 | g12851 | g12851.t1 | exon | g12851.t1.exon2 | 26538501 | 26538595 |
| chr_1 | g12851 | g12851.t1 | cds | g12851.t1.CDS2 | 26538501 | 26538595 |
| chr_1 | g12851 | g12851.t1 | exon | g12851.t1.exon3 | 26538658 | 26538782 |
| chr_1 | g12851 | g12851.t1 | cds | g12851.t1.CDS3 | 26538658 | 26538782 |
| chr_1 | g12851 | g12851.t1 | exon | g12851.t1.exon4 | 26539055 | 26539155 |
| chr_1 | g12851 | g12851.t1 | cds | g12851.t1.CDS4 | 26539055 | 26539155 |
| chr_1 | g12851 | g12851.t1 | TSS | g12851.t1 | 26539680 | 26539680 |
| chr_1 | g12851 | g12851.t1 | TTS | g12851.t1 | NA | NA |
Sequences
>g12851.t1 Gene=g12851 Length=585
ATGTCAAAAAGTGATAAAACACAACAAAATCCACCTCCTGTGATTTTACCAATCAACCTT
AATCCCGAAAAATCAGCTTCAGTACAAGACTTCAATTCAACTTCAAAACTTGCGTATGAT
GACGAAGATTATAATCCATTCGAACATCGTGTTGTCGAAAATCCTAATACAACAGCAGGA
GCTTTAGCTCACTTGCTCAAAAGTTCATTAGGCACAGGGATTCTAGCTATGCCAAATGCC
TTTAACAATGCTGGTTTAGTATTTGCATCAATTATGACAATAATTGTTGGTTTCCTTTGT
ACACATTGTGTTTGGATTTTGGTATCAACATCGCACAAAATTTGTAAAATTTCACGAACA
CCAGTGCTAGGCTTTGCAGAGACAGCAGAAAAAGTTTTTGAATATGGACCTACATGGGCT
AAAAAATGGTCGCGAGCAGCACGAAATTTTGTTGATTATGGTTTAATGGCGACTTACTAC
TCAGCTGGTTGCGTTTACATCGTATTTATTGCAAATACATTCCATGGAATCTGCAATGAT
TTGCTTAATGATCCATGGAATCTGAAATGGAGGACTTTGGACTGA
>g12851.t1 Gene=g12851 Length=194
MSKSDKTQQNPPPVILPINLNPEKSASVQDFNSTSKLAYDDEDYNPFEHRVVENPNTTAG
ALAHLLKSSLGTGILAMPNAFNNAGLVFASIMTIIVGFLCTHCVWILVSTSHKICKISRT
PVLGFAETAEKVFEYGPTWAKKWSRAARNFVDYGLMATYYSAGCVYIVFIANTFHGICND
LLNDPWNLKWRTLD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g12851.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 22 | - |
| 2 | g12851.t1 | PANTHER | PTHR22950:SF494 | GH04538P | 25 | 189 | 7.6E-57 |
| 3 | g12851.t1 | PANTHER | PTHR22950 | AMINO ACID TRANSPORTER | 25 | 189 | 7.6E-57 |
| 1 | g12851.t1 | Pfam | PF01490 | Transmembrane amino acid transporter protein | 58 | 184 | 2.7E-15 |
| 9 | g12851.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 85 | - |
| 11 | g12851.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 86 | 108 | - |
| 7 | g12851.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 109 | 149 | - |
| 10 | g12851.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 150 | 171 | - |
| 8 | g12851.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 172 | 194 | - |
| 4 | g12851.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 86 | 108 | - |
| 5 | g12851.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 155 | 177 | - |
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