General information for g10857.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g10857 is located on chr_1: 12303938..12305534 (- 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_1 | g10857 | g10857.t2 | TTS | g10857.t2 | 12303793 | 12303793 |
| chr_1 | g10857 | g10857.t2 | isoform | g10857.t2 | 12303938 | 12304932 |
| chr_1 | g10857 | g10857.t2 | exon | g10857.t2.exon1 | 12303938 | 12304932 |
| chr_1 | g10857 | g10857.t2 | cds | g10857.t2.CDS1 | 12303938 | 12304567 |
| chr_1 | g10857 | g10857.t2 | TSS | g10857.t2 | 12305391 | 12305391 |
Sequences
>g10857.t2 Gene=g10857 Length=995
TTTTGGAAAAAACACGTCGATTGCAGCATTTTGAATCAACCGAAAAGACTACAGATCAAG
CTATTATTAGTCTCACAACAGGATTATGCGAGTCTGTTTTAAAAATTTTCGATACAGAAA
GTATTTTAAACGAACTTCGAACTAACAACCATAATGGAAAGAAAATTGAGTTATGGGATG
AGCTGAAAATTCTTGCTTTTGCAAAATGCACAACACTGGTTTACGCAATTTCATTGTTAG
TTGCTAGCTTGAGAGTACAATTGAATATCATAGGTGGATATCTTTATAAAGATACGCTTC
AGTCTACAGAGAAAATTACAAAAGATATTCAAACAATATATAGTTTAGTGCTCATACAAC
ACCTAATGGGAACTGGTTTAAACACACTTGCCAAAATAATTCGTGAAAATGTCATAAAAG
TGATGAAAACTCACAGTTTGAAAGAAAAGCTTATGCTAAATGATGTGGAACAAATATTTT
GGTCAATTCAAACTTCAGTTGATAAGGACATAAACAAGAATTTAGTGCAATTCATTTTAC
CGGCAGAAGTTCATCACAATCAGCAAGATGAAATTTTAAATAAAATGTTGGCCGATAGTA
TGGATGTATTTGAATGTGGTGATTTTTTGGAAGTATGTGAGTCAAGCATTAATAATGCTT
TTGCAGTTGTGATTGATAAAATAGCAGACTTTTATGTGGAGCCGGAAAATGGTAAAAATA
AACTCAATGATCATGAGCAAGAACCTTCAACTTCACGTGGGACTTCAGAAAATTTGATTC
TAAACAACAATGGACACGTAAACATAAACACTATTTCATTACCTCTTGCAAAGCTTATTC
CTATACTTAATGCTTTAACATCTCAAATTCCCACAACAAATGCAGCTGATAACAAGTCAT
CAAAAAACCTTGCCAGCTCAATTACAATTCTTCAAAGTTTAAATCAACATCTAAAAACAT
TGGGTGCAAATGTTTATGAAGTTTATTCACACTAA
>g10857.t2 Gene=g10857 Length=209
MGTGLNTLAKIIRENVIKVMKTHSLKEKLMLNDVEQIFWSIQTSVDKDINKNLVQFILPA
EVHHNQQDEILNKMLADSMDVFECGDFLEVCESSINNAFAVVIDKIADFYVEPENGKNKL
NDHEQEPSTSRGTSENLILNNNGHVNINTISLPLAKLIPILNALTSQIPTTNAADNKSSK
NLASSITILQSLNQHLKTLGANVYEVYSH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g10857.t2 | PANTHER | PTHR28080:SF1 | PEROXISOMAL BIOGENESIS FACTOR 3 | 2 | 205 | 0 |
| 3 | g10857.t2 | PANTHER | PTHR28080 | PEROXISOMAL BIOGENESIS FACTOR 3 | 2 | 205 | 0 |
| 1 | g10857.t2 | Pfam | PF04882 | Peroxin-3 | 4 | 204 | 0 |
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:0007031 | peroxisome organization | BP |
| GO:0005779 | integral component of peroxisomal 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.
