General information for g4552.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g4552 is located on chr_2: 3215481..3216429 (+ 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 | g4552 | g4552.t5 | TSS | g4552.t5 | 3215205 | 3215205 |
| chr_2 | g4552 | g4552.t5 | isoform | g4552.t5 | 3215481 | 3216429 |
| chr_2 | g4552 | g4552.t5 | exon | g4552.t5.exon1 | 3215481 | 3216429 |
| chr_2 | g4552 | g4552.t5 | cds | g4552.t5.CDS1 | 3215699 | 3216031 |
| chr_2 | g4552 | g4552.t5 | TTS | g4552.t5 | 3216422 | 3216422 |
Sequences
>g4552.t5 Gene=g4552 Length=949
GCTTTGGAAAAAGTTTCGAAGTTTTCTACAGTTCACTCAAATCGATACATTATAGTGATG
CATGGATTGCTTTCACATCAACAGTCACAAAAATTTGCCAAGCAATTTTTCTACTTACTG
ATCATATAATTTGGCTATCGAGAAGTGGTTTATTTAAAAATATTGATACACCTAAATGGA
GTCAAAGAAGTAATAGATATTGGGTTGTTTCACTCATTATGAGCATCATAAGGGATGTTT
ATGAAATAAATCGTGTCATTTCAAGTTTTACATCATATAAAGACCTCACACAATGCATTG
CATCATCAATGTTCAGCATAAGAAGTACAAAAGACATCACACGATGTGCATCATCATTGG
CTGAGTTTCTTGTCACTTATAAGCATATAACGATAGACACCATCAAAAATGTCTGTGATC
TATTCATTCCACTAAATGGTCTAGGATATACAAAATTATCGCCTAAGGTTATTGGCCTAT
TAGGCGTTATATCGTCATTAATGGGTCTCATTGTTGTTCTCGATCCAAGCTGTAAATTAC
TTCCTCAATGAGAAGAAATTATCATTCTGATGATAATGGTGACAAGGGACTATGGTGAAT
TTGCTGTTTTTTTACTTACTTTTTATTTCTTTCAATTTTTTTGTATCGCTAAATGTGTAT
TTATATAAAAAAATTAAGTAGTTTCATTTTGTTAGCAATTGCTATTGAAGTAACATGAGA
AATATATTGCCAAACAAAAGTAAACAAAGAAATACGAATTGCTCACACTCTTTCTATTTC
TACATTGTGTTGATTCATTCAACCACAAGCTATATGTGTGTGTATGTATAAGAAAAAGTA
GATTAAGGTAAAACATTTTTAATGGGGAGGATGTTCCAAATAAATATCATAAAATGTAAT
ATTATAAATAAAAAGTGCCAGTATGTGTGCACGAGGGATGAGAAAAAAA
>g4552.t5 Gene=g4552 Length=110
MSIIRDVYEINRVISSFTSYKDLTQCIASSMFSIRSTKDITRCASSLAEFLVTYKHITID
TIKNVCDLFIPLNGLGYTKLSPKVIGLLGVISSLMGLIVVLDPSCKLLPQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g4552.t5 | PANTHER | PTHR12652:SF22 | PEROXISOMAL MEMBRANE PROTEIN 11A | 1 | 107 | 4.6E-12 |
| 3 | g4552.t5 | PANTHER | PTHR12652 | PEROXISOMAL BIOGENESIS FACTOR 11 | 1 | 107 | 4.6E-12 |
| 1 | g4552.t5 | Pfam | PF05648 | Peroxisomal biogenesis factor 11 (PEX11) | 1 | 98 | 4.4E-16 |
| 5 | g4552.t5 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 83 | - |
| 7 | g4552.t5 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 84 | 101 | - |
| 6 | g4552.t5 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 102 | 110 | - |
| 4 | g4552.t5 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 84 | 101 | - |
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:0005779 | integral component of peroxisomal membrane | CC |
| GO:0016559 | peroxisome fission | BP |
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.
