General information for g17572.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Peroxisomal targeting signal 1 receptor.
Parent gene
- The parent gene g17572 is located on chr_4: 13955728..13957514 (- 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_4 | g17572 | g17572.t4 | TTS | g17572.t4 | 13955667 | 13955667 |
| chr_4 | g17572 | g17572.t4 | isoform | g17572.t4 | 13955728 | 13956323 |
| chr_4 | g17572 | g17572.t4 | exon | g17572.t4.exon1 | 13955728 | 13956323 |
| chr_4 | g17572 | g17572.t4 | cds | g17572.t4.CDS1 | 13955728 | 13956273 |
| chr_4 | g17572 | g17572.t4 | TSS | g17572.t4 | NA | NA |
Sequences
>g17572.t4 Gene=g17572 Length=596
CAAGTGAAGGAGCAGGTATTGAAGAAATCACAACTTCGAGAATTCGCGGAATGGAACTAC
AAAATACACAAGAACTTTTCTTAAAAGCTGTTCAATTGAATGCTGAAAGCGGAAATTTTG
ATTCAGATATTCAGGAAGCACTCGGTGTTCTTTTCAATTTAAGTAGTGAATATGATAAAA
CTGTAGATTGTTTCCAAGCTGCTGTTGAAATTTCACCTAATAATGCCAAACTTTGGAACC
GATTAGGTGCAAGTTTTGCAAATGGAAATCGACCAATTGAAGCAGTTGGAGCATATCAAC
GAGCATTAGAAATTGAACCAGGTTTTATTAGAGCTCGCTATAATGTTGGAGTTGTTTGTA
TCAATCTAAAATCTTATAAAGAAGCTGCTGAACACTTATTGCTAGCTTTAAATCATCAAG
CCACATCGAAACAAAGAGCTGGAATTAATATTGAAAATGTTCAAAATCAAATGAGTGATA
CACTTTGGTCAACTTTAAGAATGACGATAAGTTTAATGGGAAAGCATAATTTGCAAGATT
TTGTAGATAAAAGAGATCTTGATTCGTTGAATAAGGAATTTACAATGGAAAGTTAA
>g17572.t4 Gene=g17572 Length=181
MELQNTQELFLKAVQLNAESGNFDSDIQEALGVLFNLSSEYDKTVDCFQAAVEISPNNAK
LWNRLGASFANGNRPIEAVGAYQRALEIEPGFIRARYNVGVVCINLKSYKEAAEHLLLAL
NHQATSKQRAGINIENVQNQMSDTLWSTLRMTISLMGKHNLQDFVDKRDLDSLNKEFTME
S
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g17572.t4 | Gene3D | G3DSA:1.25.40.10 | - | 1 | 181 | 0.0000 |
| 1 | g17572.t4 | PANTHER | PTHR10130 | PEROXISOMAL TARGETING SIGNAL 1 RECEPTOR PEX5 | 4 | 177 | 0.0000 |
| 2 | g17572.t4 | PANTHER | PTHR10130:SF0 | GH08708P | 4 | 177 | 0.0000 |
| 11 | g17572.t4 | ProSiteProfiles | PS50293 | TPR repeat region circular profile. | 1 | 126 | 23.3750 |
| 9 | g17572.t4 | ProSiteProfiles | PS50005 | TPR repeat profile. | 25 | 58 | 10.3550 |
| 8 | g17572.t4 | ProSiteProfiles | PS50005 | TPR repeat profile. | 59 | 92 | 9.5880 |
| 10 | g17572.t4 | ProSiteProfiles | PS50005 | TPR repeat profile. | 93 | 126 | 5.7530 |
| 5 | g17572.t4 | SMART | SM00028 | tpr_5 | 25 | 58 | 0.2100 |
| 4 | g17572.t4 | SMART | SM00028 | tpr_5 | 59 | 92 | 0.0026 |
| 6 | g17572.t4 | SMART | SM00028 | tpr_5 | 93 | 126 | 8.0000 |
| 3 | g17572.t4 | SUPERFAMILY | SSF48452 | TPR-like | 4 | 179 | 0.0000 |
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:0005515 | protein binding | MF |
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.
