General information for g949.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Peroxisomal membrane protein 11C.
Parent gene
- The parent gene g949 is located on chr_3: 7018446..7020504 (+ 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 | g949 | g949.t4 | TSS | g949.t4 | 7016912 | 7016912 |
| chr_3 | g949 | g949.t4 | isoform | g949.t4 | 7016957 | 7018446 |
| chr_3 | g949 | g949.t4 | exon | g949.t4.exon1 | 7016957 | 7017019 |
| chr_3 | g949 | g949.t4 | cds | g949.t4.CDS1 | 7016957 | 7017019 |
| chr_3 | g949 | g949.t4 | exon | g949.t4.exon2 | 7017504 | 7017875 |
| chr_3 | g949 | g949.t4 | cds | g949.t4.CDS2 | 7017504 | 7017875 |
| chr_3 | g949 | g949.t4 | exon | g949.t4.exon3 | 7018164 | 7018446 |
| chr_3 | g949 | g949.t4 | TTS | g949.t4 | 7018694 | 7018694 |
Sequences
>g949.t4 Gene=g949 Length=718
ATGCCAAATCATATTTTAGGGGAAATTTGCTCAATGCTTGACACTTACACAGGTCGAGAC
AAAATTGTTCGAACATTATGTTATACGGCAAAATTAATGTCTGCAATTCAAGCTGAGAAA
GGTAACGATGATTATGCCAAAAAATTTGCAATTTTTAGTACGAAGATGTCCCAAACACGT
GCAAACTTGAGATTATTTGATGACATTCCAATGATTCAATACTCGCTTGAATATGGTTTA
GGAGAAAAGGAACCTGATCGAATGATGGCAATGATTGGTGTAATTACAAATATTGTAGAT
CATTTGTATTATCCTGTAGATAAAATTTGTTGGGCCATTGATTCAAAAATTTTGAATCCA
AAGAACCCAGAAAAATGGGACACTTTAAACAGTGTGTTTTGGGCGGCATCAATTTATTTG
AACCTAATGAAGTAAGACTATTAGACTTGTTTACATCATGCGTCTTCATCGGCAAAATAT
TGATAAAATAGAAAATGAGAGTGCTGTTGCTTTGAAGAAGCTCGAAGCAAAGGAACGAAT
GGAAATGATTAGTATTTTTAGACTTACACTTGATTTTGTTCATGCTTCATCAACCCTTCC
GTCCGGCTGGCTTTGGGGTGGAAAATTATCTACATTTTCAGTTGGACTCATAGGTAGCAC
TTCCTCGTTAATTGGTCTTTATCAGTATTTTGCAAAGAAGCGACTTGCGAAAAGTTAA
>g949.t4 Gene=g949 Length=144
MPNHILGEICSMLDTYTGRDKIVRTLCYTAKLMSAIQAEKGNDDYAKKFAIFSTKMSQTR
ANLRLFDDIPMIQYSLEYGLGEKEPDRMMAMIGVITNIVDHLYYPVDKICWAIDSKILNP
KNPEKWDTLNSVFWAASIYLNLMK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g949.t4 | PANTHER | PTHR20990 | PEROXISOMAL BIOGENESIS FACTOR 11 | 5 | 144 | 0 |
| 1 | g949.t4 | Pfam | PF05648 | Peroxisomal biogenesis factor 11 (PEX11) | 8 | 143 | 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: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.
