General information for g13099.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Peroxisome assembly protein 12.
Parent gene
- The parent gene g13099 is located on chr_1: 27943851..27945235 (+ 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 | g13099 | g13099.t1 | isoform | g13099.t1 | 27943513 | 27944576 |
| chr_1 | g13099 | g13099.t1 | exon | g13099.t1.exon1 | 27943513 | 27943629 |
| chr_1 | g13099 | g13099.t1 | cds | g13099.t1.CDS1 | 27943513 | 27943629 |
| chr_1 | g13099 | g13099.t1 | exon | g13099.t1.exon2 | 27943685 | 27943793 |
| chr_1 | g13099 | g13099.t1 | cds | g13099.t1.CDS2 | 27943685 | 27943793 |
| chr_1 | g13099 | g13099.t1 | exon | g13099.t1.exon3 | 27943849 | 27944576 |
| chr_1 | g13099 | g13099.t1 | cds | g13099.t1.CDS3 | 27943849 | 27944576 |
| chr_1 | g13099 | g13099.t1 | TTS | g13099.t1 | 27944653 | 27944653 |
| chr_1 | g13099 | g13099.t1 | TSS | g13099.t1 | NA | NA |
Sequences
>g13099.t1 Gene=g13099 Length=954
ATGGCTCAAGGTGCTCATTTAGCAACGAGTAATGTTGAAAGACCATCAATTTTTGAATTG
ATAGCATCACAATCATTGGATGCAACGTTTTATCCAGCTTTTAAGAAAATAGCTTTGTAT
TTAGGAAGTAAAAATCCAGATCGGTATCAGCTTATTGTGAAGTATTATGACGAAGTATTT
CTTGCATTTAATGCTATTGTGCAAAATTATTATTTGCATAAAAATGGTGCATCAATATCA
GAATCATTTTATGGCTTAACACGATTTAATTTAAAAACTAATCAGTTTAAGAGACGTGAT
TTTATCGTGTCATTTGCAGTTCTTGTAATTATTCCTTATTTGTTAAGGAAATTAGATAAA
AAGGTGACGACAGTAAAAGAAAAGTTAGAAGATGAACTAAGCAATGATGACAAATACAAA
TTTATTGGTGTATATACATATAAAACTCTGAAGGCATCATATGAATTTGCTCAAATTATA
AAATACATTAGTTATTTAAGTGGTCGTTCCAAGACACACAACATTCCACTTTTCTTATCA
AGCATTGGATTACGACATGCAAATCTACAAGATGACTCATTTAGCTTTAGTGATATAATA
AGTGGAAATGTCAAATTTTCAACTGTAATAGGGTCAATGGTATTGAGAACTTTAGAATTT
GGTGGATTCTTTTTACAATTTTTACAATGGTATCAAGAGAGTTCTGCATCTCAAAAAATT
ATATCACAATTACCAACACCTATTGCTCCAAAACAAGACAGTGATGCGAAGAAATATTCA
AATATATGTCCATTGTGCTATCAACATTTTGCAATTCCAACTGTTTTAACAATATCTGGC
TATGTTTTTTGTTATAAATGCATAACCAAGCATTTAAGACGACATCAATATTGTCCTGTT
ACCAATTATCCAGCAACAATGGATGATTTGACAAGGCTTTATGATAACAATTAA
>g13099.t1 Gene=g13099 Length=317
MAQGAHLATSNVERPSIFELIASQSLDATFYPAFKKIALYLGSKNPDRYQLIVKYYDEVF
LAFNAIVQNYYLHKNGASISESFYGLTRFNLKTNQFKRRDFIVSFAVLVIIPYLLRKLDK
KVTTVKEKLEDELSNDDKYKFIGVYTYKTLKASYEFAQIIKYISYLSGRSKTHNIPLFLS
SIGLRHANLQDDSFSFSDIISGNVKFSTVIGSMVLRTLEFGGFFLQFLQWYQESSASQKI
ISQLPTPIAPKQDSDAKKYSNICPLCYQHFAIPTVLTISGYVFCYKCITKHLRRHQYCPV
TNYPATMDDLTRLYDNN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g13099.t1 | CDD | cd16451 | mRING_PEX12 | 263 | 304 | 4.06241E-18 |
| 5 | g13099.t1 | Coils | Coil | Coil | 115 | 135 | - |
| 4 | g13099.t1 | Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain | 248 | 316 | 1.6E-10 |
| 2 | g13099.t1 | PANTHER | PTHR12888 | PEROXISOME ASSEMBLY PROTEIN 12 PEROXIN-12 | 9 | 315 | 6.6E-64 |
| 9 | g13099.t1 | PIRSF | PIRSF038074 | Peroxin-12 | 2 | 317 | 4.4E-79 |
| 1 | g13099.t1 | Pfam | PF04757 | Pex2 / Pex12 amino terminal region | 24 | 233 | 1.1E-25 |
| 6 | g13099.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 97 | - |
| 8 | g13099.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 98 | 115 | - |
| 7 | g13099.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 116 | 317 | - |
| 3 | g13099.t1 | SUPERFAMILY | SSF57850 | RING/U-box | 262 | 313 | 1.32E-13 |
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:0008022 | protein C-terminus binding | MF |
| GO:0008270 | zinc ion binding | MF |
| GO:0006625 | protein targeting to peroxisome | BP |
KEGG
Orthology
- This transcript has been annotated with K13345 (peroxin-12)
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.
