General information for g15842.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g15842 is located on chr_4: 6993136..6994564 (+ 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 | g15842 | g15842.t2 | TSS | g15842.t2 | 6992560 | 6992560 |
| chr_4 | g15842 | g15842.t2 | isoform | g15842.t2 | 6992635 | 6993275 |
| chr_4 | g15842 | g15842.t2 | exon | g15842.t2.exon1 | 6992635 | 6992955 |
| chr_4 | g15842 | g15842.t2 | cds | g15842.t2.CDS1 | 6992635 | 6992955 |
| chr_4 | g15842 | g15842.t2 | exon | g15842.t2.exon2 | 6993018 | 6993061 |
| chr_4 | g15842 | g15842.t2 | cds | g15842.t2.CDS2 | 6993018 | 6993061 |
| chr_4 | g15842 | g15842.t2 | exon | g15842.t2.exon3 | 6993136 | 6993275 |
| chr_4 | g15842 | g15842.t2 | cds | g15842.t2.CDS3 | 6993136 | 6993235 |
| chr_4 | g15842 | g15842.t2 | TTS | g15842.t2 | 6993346 | 6993346 |
Sequences
>g15842.t2 Gene=g15842 Length=505
ATGAGGAAGCTCATAGTTAGTATATACAAGAAAACAGCACAAGTTGTTGTTAAACAACAT
GATGATCTTTTTGGGAAGTATCTGTTATTAACCAACACAGTTTCAAGTGGATTGCTGATG
TATTTTGGAGAATATTGTGCACAAAAAATTGAAAATCATAAAAATAAAACTGAAAAAGAA
ATTGATAAAGAGAAAATGAAGCAATTGGCAGTTGTAGGTCTGAGTCAAGGACCATTGCAT
CATTATACGTACTTGTGGATGGAAAGATTATTGCCTGGAAATGCAGCATCGACAGTTGGA
AAGAAAATTTTAAGTGATCAATTCATTGTGTCACCAGTTTTTATTGTTCATTATTTCTAT
ACAGCCGGATTGGCTTGTATGGCCAGCGACTCAATTTATCAATTTTTATTTTGTTCCATT
AAAATATCGAGTGCTTTACATAAATATGATTACAATGTTTTATAATGTATTCCTGTGTTA
TGTGAAGAATGAGAAAAAGCATTAG
>g15842.t2 Gene=g15842 Length=154
MRKLIVSIYKKTAQVVVKQHDDLFGKYLLLTNTVSSGLLMYFGEYCAQKIENHKNKTEKE
IDKEKMKQLAVVGLSQGPLHHYTYLWMERLLPGNAASTVGKKILSDQFIVSPVFIVHYFY
TAGLACMASDSIYQFLFCSIKISSALHKYDYNVL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g15842.t2 | Coils | Coil | Coil | 47 | 67 | - |
| 1 | g15842.t2 | PANTHER | PTHR11266 | PEROXISOMAL MEMBRANE PROTEIN 2, PXMP2 MPV17 | 15 | 124 | 5.7E-38 |
| 2 | g15842.t2 | PANTHER | PTHR11266:SF81 | GH12661P | 15 | 124 | 5.7E-38 |
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