General information for g4246.t17
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Transmembrane protein 33.
Parent gene
- The parent gene g4246 is located on chr_2: 607620..608312 (+ 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_2 | g4246 | g4246.t17 | isoform | g4246.t17 | 607409 | 608312 |
| chr_2 | g4246 | g4246.t17 | exon | g4246.t17.exon1 | 607409 | 607490 |
| chr_2 | g4246 | g4246.t17 | cds | g4246.t17.CDS1 | 607462 | 607490 |
| chr_2 | g4246 | g4246.t17 | exon | g4246.t17.exon2 | 607559 | 608312 |
| chr_2 | g4246 | g4246.t17 | cds | g4246.t17.CDS2 | 607559 | 607796 |
| chr_2 | g4246 | g4246.t17 | TTS | g4246.t17 | 608307 | 608307 |
| chr_2 | g4246 | g4246.t17 | TSS | g4246.t17 | NA | NA |
Sequences
>g4246.t17 Gene=g4246 Length=836
AATTTCAACAAAGAAACATTTTGAGATTGATTGCCTTTTCAGAAATTTTCTTAATGCCTG
TCGCAATAATCTCAACATTTACTGGTCGTGCTGGTCTTATGACACCATTCATTTATTATC
ATTTTTTGACTCTTCGTTATTCATCTCGTCGTAATCCACATACCCGAAATATGTTCCACG
AACTGAGATTGGCAACAGAAAATATTGCAAATAATCCTAAAGCACCTCCAATTATTGGAA
AAGTATTGCATGGAGCTGTTAGATTGATTTCACGCCTTGCTCCGGCTCAAATACCACCAC
AACAACAACACGCCCAGTAAAATATTTTTCCTTCAAAAAAGTTTTTTTTAATTATTTAAC
GGGTTTAATTCTGTTTCGTCTTATTTGGTAAAATGGATCATTTTTTTGTAGTGTTTTTTT
CTATTTTATTATAATACATTATATATTATTGATAAACATATTTTAATGTCATCATAATAT
GTTTAATTAGAGTTTTTTGCGGTATTAAATTTTAATATTACTCGTCTCTTGTGAATTATT
CACATACATACATAAAAAATTTTTCGTTGACATGCACATACATAAAACTTACATATATAT
ATATATTGAAGAAATAGTAACAATTGTTTAAACAATTTAATTCAGAAACAAAAATTGTTT
CAAAAATAAAAGACAAACGTGAATGTTTTGAAATAATTTGCATCAATTGAAATTTTTGTT
TCCCAATAAATATTTGTTTTTATACTCTTATTCACAATTTGTTTTTTAATGTGCAATTGT
AATAAAATTTCAATTTATCAAATAAAAATTTTCAAAAAAATACTCTTAATTAAATG
>g4246.t17 Gene=g4246 Length=88
MPVAIISTFTGRAGLMTPFIYYHFLTLRYSSRRNPHTRNMFHELRLATENIANNPKAPPI
IGKVLHGAVRLISRLAPAQIPPQQQHAQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g4246.t17 | PANTHER | PTHR12703:SF4 | TRANSMEMBRANE PROTEIN 33 | 1 | 86 | 9.6E-17 |
| 3 | g4246.t17 | PANTHER | PTHR12703 | TRANSMEMBRANE PROTEIN 33 | 1 | 86 | 9.6E-17 |
| 1 | g4246.t17 | Pfam | PF03661 | Transmembrane protein 33/Nucleoporin POM33 | 1 | 77 | 4.2E-29 |
| 4 | g4246.t17 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 5 | 27 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0016021 | integral component of membrane | CC |
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