General information for g14175.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Peroxisomal biogenesis factor 19.
Parent gene
- The parent gene g14175 is located on chr_1: 35238406..35239994 (+ 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 | g14175 | g14175.t2 | TSS | g14175.t2 | 35238228 | 35238228 |
| chr_1 | g14175 | g14175.t2 | isoform | g14175.t2 | 35238308 | 35239261 |
| chr_1 | g14175 | g14175.t2 | exon | g14175.t2.exon1 | 35238308 | 35238375 |
| chr_1 | g14175 | g14175.t2 | cds | g14175.t2.CDS1 | 35238336 | 35238375 |
| chr_1 | g14175 | g14175.t2 | exon | g14175.t2.exon2 | 35238444 | 35239261 |
| chr_1 | g14175 | g14175.t2 | cds | g14175.t2.CDS2 | 35238444 | 35239261 |
| chr_1 | g14175 | g14175.t2 | TTS | g14175.t2 | 35239491 | 35239491 |
Sequences
>g14175.t2 Gene=g14175 Length=886
ATGTCAGATAAAAAAGAAGGTAATCAAAATGTCAAAGATGAGGAGCTCGATGAGTTATTG
GATAGTAAGCGCTCTCGAAGATTTTGAAAAAGTGGCAATAAAAGATAATGGTGCTAAAAC
TTCAACTTCGAAACCAGCAACAAGTGATGAAGAAGTTGAAGATCCGCCAATGGAAACATT
ATGGAATGATCAATTCATTGCTGAGCAAGCTAAACTTTTTGAAAAACAAATGGCAGATAT
TTTCGGTGCTAGTGCTGGTGATACAGAAGTCACACCTGAACAATTGCAATTAGGCTTTCA
ACGTATAGCTGAAGCCGCTGCATTAGCAACTGATCCGAATGCAACACAACAAATCCCAGA
TATAGATCCAACATTTACACAGAGTATAAAAGATGTGCTAAAAGGATTAAGTGAAGGACA
ACAAAATTTACAGCAACCGTTTAATGCCGAAGATATTGCAGGCATGTTTGGAAATATTAA
TTTAAATGAGTCAGGAGAGAGTAATGCATTTTTACCATTCATGCAAGGAATGATGCAAAG
TTTACTCTCAGCAGAAGTACTATTGCCAAGTTTAAAAGAACTATCATCTAAATATCCAAA
TTGGTTAACAGAAAATTCATCAAAACTTAATCCAGAGGAAAAGGAGCGATATGAAAATCA
ATATAAACTTATGAAAGAAGTATGTGATGAGTTAGAAAAAGAAAAATCAGATGATAGTGC
AGATGTCAAAAAAGAAAGATTCAATATTGTCCTCGATCGAATGCAAAAAATGCAAGAACT
AGGTCAACCGCCAGCTGAAATTTTAGGTGAGGGAGCTGAAAATACAATGCCTTTACCAAA
TTTGCCAACGTCTGCAGATGGGAATGAACAGTGTTCTGTAATGTAA
>g14175.t2 Gene=g14175 Length=285
MSKMRSSMSYWIVSALEDFEKVAIKDNGAKTSTSKPATSDEEVEDPPMETLWNDQFIAEQ
AKLFEKQMADIFGASAGDTEVTPEQLQLGFQRIAEAAALATDPNATQQIPDIDPTFTQSI
KDVLKGLSEGQQNLQQPFNAEDIAGMFGNINLNESGESNAFLPFMQGMMQSLLSAEVLLP
SLKELSSKYPNWLTENSSKLNPEEKERYENQYKLMKEVCDELEKEKSDDSADVKKERFNI
VLDRMQKMQELGQPPAEILGEGAENTMPLPNLPTSADGNEQCSVM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g14175.t2 | Coils | Coil | Coil | 205 | 225 | - |
| 7 | g14175.t2 | Gene3D | G3DSA:1.20.120.900 | - | 148 | 268 | 2.3E-39 |
| 5 | g14175.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 24 | 46 | - |
| 6 | g14175.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 252 | 285 | - |
| 4 | g14175.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 268 | 285 | - |
| 2 | g14175.t2 | PANTHER | PTHR12774 | PEROXISOMAL BIOGENESIS FACTOR 19 | 7 | 283 | 1.2E-46 |
| 3 | g14175.t2 | PANTHER | PTHR12774:SF2 | PEROXISOMAL BIOGENESIS FACTOR 19 | 7 | 283 | 1.2E-46 |
| 1 | g14175.t2 | Pfam | PF04614 | Pex19 protein family | 54 | 285 | 3.4E-47 |
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:0005777 | peroxisome | CC |
KEGG
Orthology
- This transcript has been annotated with K13337 (peroxin-19)
Pathway
- This transcript belongs to the following pathways
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.
