General information for g2438.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Pleiotropic regulator 1.
Parent gene
- The parent gene g2438 is located on chr_3: 18002692..18004111 (- 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 | g2438 | g2438.t3 | isoform | g2438.t3 | 18002433 | 18003181 |
| chr_3 | g2438 | g2438.t3 | exon | g2438.t3.exon1 | 18002433 | 18003181 |
| chr_3 | g2438 | g2438.t3 | cds | g2438.t3.CDS1 | 18002692 | 18003081 |
| chr_3 | g2438 | g2438.t3 | TSS | g2438.t3 | 18004200 | 18004200 |
| chr_3 | g2438 | g2438.t3 | TTS | g2438.t3 | NA | NA |
Sequences
>g2438.t3 Gene=g2438 Length=749
GACAGTAAGATTATGGGATTTGGCTGCAGGTAAAAGTCTTTGTACACTGACAAATCATAA
AAAGAGCGTTCGTAGTGTTGTTCTTCATCCAACTCTCTATATGTTTGCATCTGCAAGTCC
TGATAATATCAAACAATGGCGTTGTCCCGAAGGAAATTTCGTACAAAATTTATCGGGGCA
TAATACAATTGTTAATTGCATGGCTGTCAATCCTGAAGGAGTTTTAGTTTCTGGTGGTGA
CAATGGAAGCATGAATTTCTGGGATTGGAGAACAGGATATAATTTCCAGCGTTTTCAAGC
TGCAGTTCAACCTGGTTCAATGGATTCTGAAGCTGGAATTTTCTCAATGACTTTTGATCA
ATCTGGATCAAGATTAATAACTACAGAAGCTGACAAGACTATTAAAATATACAAGGAAGA
TGATGAAGCGAGTGAAGAAACTCATCCAGTAAATTGGAAACCAGATATCATTAAGCGACG
TAAATATTAAAATAATATTCAATAAATATTTTTGCTAAAGACAAACAAAAATATCTCAAA
ATTTAATTTCCATTTGGCATTAACATTTATTTAAAAAATGATTCATTCATTTCAATCGTT
CGTCATTTCGTTTAAAATTAAATAAAAAAAGTAATTTCTTTATAAAATCTAATGAGGAGG
AATATCAAGTAATGATAAAAAAAATTAATGGCTTTCAACATGTAAATGACTCATAAATTA
TAAGCTGCCTTCTCTATGTATTTTAAAAT
>g2438.t3 Gene=g2438 Length=129
MFASASPDNIKQWRCPEGNFVQNLSGHNTIVNCMAVNPEGVLVSGGDNGSMNFWDWRTGY
NFQRFQAAVQPGSMDSEAGIFSMTFDQSGSRLITTEADKTIKIYKEDDEASEETHPVNWK
PDIIKRRKY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g2438.t3 | Gene3D | G3DSA:2.130.10.10 | - | 1 | 107 | 0.0000000 |
| 2 | g2438.t3 | PANTHER | PTHR19923 | WD40 REPEAT PROTEINPRL1/PRL2-RELATED | 1 | 125 | 0.0000000 |
| 1 | g2438.t3 | Pfam | PF00400 | WD domain, G-beta repeat | 19 | 55 | 0.0000053 |
| 7 | g2438.t3 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 1 | 114 | 16.4800000 |
| 8 | g2438.t3 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 24 | 64 | 11.9120000 |
| 4 | g2438.t3 | SMART | SM00320 | WD40_4 | 17 | 55 | 0.0000019 |
| 5 | g2438.t3 | SMART | SM00320 | WD40_4 | 67 | 105 | 1.6000000 |
| 3 | g2438.t3 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 2 | 105 | 0.0000000 |
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.
