General information for g14175.t1
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.t1 | TSS | g14175.t1 | 35238228 | 35238228 |
| chr_1 | g14175 | g14175.t1 | isoform | g14175.t1 | 35238308 | 35239261 |
| chr_1 | g14175 | g14175.t1 | exon | g14175.t1.exon1 | 35238308 | 35238371 |
| chr_1 | g14175 | g14175.t1 | cds | g14175.t1.CDS1 | 35238308 | 35238371 |
| chr_1 | g14175 | g14175.t1 | exon | g14175.t1.exon2 | 35238444 | 35239261 |
| chr_1 | g14175 | g14175.t1 | cds | g14175.t1.CDS2 | 35238444 | 35239261 |
| chr_1 | g14175 | g14175.t1 | TTS | g14175.t1 | 35239491 | 35239491 |
Sequences
>g14175.t1 Gene=g14175 Length=882
ATGTCAGATAAAAAAGAAGGTAATCAAAATGTCAAAGATGAGGAGCTCGATGAGTTATTG
GATAGCGCTCTCGAAGATTTTGAAAAAGTGGCAATAAAAGATAATGGTGCTAAAACTTCA
ACTTCGAAACCAGCAACAAGTGATGAAGAAGTTGAAGATCCGCCAATGGAAACATTATGG
AATGATCAATTCATTGCTGAGCAAGCTAAACTTTTTGAAAAACAAATGGCAGATATTTTC
GGTGCTAGTGCTGGTGATACAGAAGTCACACCTGAACAATTGCAATTAGGCTTTCAACGT
ATAGCTGAAGCCGCTGCATTAGCAACTGATCCGAATGCAACACAACAAATCCCAGATATA
GATCCAACATTTACACAGAGTATAAAAGATGTGCTAAAAGGATTAAGTGAAGGACAACAA
AATTTACAGCAACCGTTTAATGCCGAAGATATTGCAGGCATGTTTGGAAATATTAATTTA
AATGAGTCAGGAGAGAGTAATGCATTTTTACCATTCATGCAAGGAATGATGCAAAGTTTA
CTCTCAGCAGAAGTACTATTGCCAAGTTTAAAAGAACTATCATCTAAATATCCAAATTGG
TTAACAGAAAATTCATCAAAACTTAATCCAGAGGAAAAGGAGCGATATGAAAATCAATAT
AAACTTATGAAAGAAGTATGTGATGAGTTAGAAAAAGAAAAATCAGATGATAGTGCAGAT
GTCAAAAAAGAAAGATTCAATATTGTCCTCGATCGAATGCAAAAAATGCAAGAACTAGGT
CAACCGCCAGCTGAAATTTTAGGTGAGGGAGCTGAAAATACAATGCCTTTACCAAATTTG
CCAACGTCTGCAGATGGGAATGAACAGTGTTCTGTAATGTAA
>g14175.t1 Gene=g14175 Length=293
MSDKKEGNQNVKDEELDELLDSALEDFEKVAIKDNGAKTSTSKPATSDEEVEDPPMETLW
NDQFIAEQAKLFEKQMADIFGASAGDTEVTPEQLQLGFQRIAEAAALATDPNATQQIPDI
DPTFTQSIKDVLKGLSEGQQNLQQPFNAEDIAGMFGNINLNESGESNAFLPFMQGMMQSL
LSAEVLLPSLKELSSKYPNWLTENSSKLNPEEKERYENQYKLMKEVCDELEKEKSDDSAD
VKKERFNIVLDRMQKMQELGQPPAEILGEGAENTMPLPNLPTSADGNEQCSVM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g14175.t1 | Coils | Coil | Coil | 213 | 233 | - |
| 7 | g14175.t1 | Gene3D | G3DSA:1.20.120.900 | - | 156 | 276 | 2.4E-39 |
| 5 | g14175.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 30 | 56 | - |
| 4 | g14175.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 260 | 293 | - |
| 6 | g14175.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 276 | 293 | - |
| 2 | g14175.t1 | PANTHER | PTHR12774 | PEROXISOMAL BIOGENESIS FACTOR 19 | 2 | 291 | 2.5E-51 |
| 3 | g14175.t1 | PANTHER | PTHR12774:SF2 | PEROXISOMAL BIOGENESIS FACTOR 19 | 2 | 291 | 2.5E-51 |
| 1 | g14175.t1 | Pfam | PF04614 | Pex19 protein family | 62 | 293 | 5.5E-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.
