General information for g2510.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Peroxisomal membrane protein PEX16.
Parent gene
- The parent gene g2510 is located on chr_3: 18341595..18342496 (+ 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 | g2510 | g2510.t1 | TSS | g2510.t1 | 18341342 | 18341342 |
| chr_3 | g2510 | g2510.t1 | isoform | g2510.t1 | 18341411 | 18342496 |
| chr_3 | g2510 | g2510.t1 | exon | g2510.t1.exon1 | 18341411 | 18341525 |
| chr_3 | g2510 | g2510.t1 | cds | g2510.t1.CDS1 | 18341411 | 18341525 |
| chr_3 | g2510 | g2510.t1 | exon | g2510.t1.exon2 | 18341586 | 18342496 |
| chr_3 | g2510 | g2510.t1 | cds | g2510.t1.CDS2 | 18341586 | 18342496 |
| chr_3 | g2510 | g2510.t1 | TTS | g2510.t1 | 18342541 | 18342541 |
Sequences
>g2510.t1 Gene=g2510 Length=1026
ATGGCTTTAAATCTTAAAACACTTTTTAAACAATATGCAAAATTCATTGCTGACAATGCA
GAGACATGTTCTGACATTGAAATGATGACAAAGTATTTTGGCTATTTTATATCTGGAAAG
CTATCGAACGACGGTAGTAACATATTGACAGAAGCTATGCTTAGTTTTTCAAACTTGCTT
GTCGTTTTTAATGATCAAATCATTAGAAGAGAAGTTATTAATCGACATGATGACGATTCG
AGAGAAAGATACGATGAAGAGCATAAACTTAAATTGTTTCTTACGATTTTAGACAATTTA
GAAGTGCTTATAGAACTAACATCAAAGAAAATGTTTGGCAATAAGAGGAAATTTATTGTT
ATCTTCATAATACAAACTGTGAAGTGTGTTGGACGGCTAGTTTTATTGATTAAATATAAA
AATAGAATTTCACAGACACCGGCGATTGAATATTTAGATCGAAAAAATATCTTCAAACAA
ACTCAGAATACAAGTCCATTACAACCAGAATTAAATCAAACTTCTTCAATAACACTAAAA
CTCAAACGTTCTGGAAAAACGATACGAAAAGTGTCAAATGCGCCACCAATTTATAGTAGA
AACTTTAAAGCGCCTGAACTTGAATCATCAGATAGATTTTATTCCCTTAATCACACGGCA
ATAAAAAATGCTGAAATTATGTATGTACTTAAGCCAATGCTCCATCTTGGTTCTGTAGCT
GCATTTGGTTATAAATCATGGAAAAGTTACTTTTTTCCTCTATTATTGGATACATACAGC
ATTTATATTTACTATAAATATCGAAATTATATGACATCAGATCAAAAGAGAGAATTGAGT
AGAAGATGTGTTAATATGCTTCTTTATATATTGAGATCACCATTTTACGATAAATATTCG
GCAGATAAAATTGATTCTTTCATGAGAGCACTCAATAACATTCCATTTGCAAGATTTATT
GTTGAACCATATAGACAATATCTACCTAATTATCAAGACACATACTTCTACATGTTCAGT
AATTAA
>g2510.t1 Gene=g2510 Length=341
MALNLKTLFKQYAKFIADNAETCSDIEMMTKYFGYFISGKLSNDGSNILTEAMLSFSNLL
VVFNDQIIRREVINRHDDDSRERYDEEHKLKLFLTILDNLEVLIELTSKKMFGNKRKFIV
IFIIQTVKCVGRLVLLIKYKNRISQTPAIEYLDRKNIFKQTQNTSPLQPELNQTSSITLK
LKRSGKTIRKVSNAPPIYSRNFKAPELESSDRFYSLNHTAIKNAEIMYVLKPMLHLGSVA
AFGYKSWKSYFFPLLLDTYSIYIYYKYRNYMTSDQKRELSRRCVNMLLYILRSPFYDKYS
ADKIDSFMRALNNIPFARFIVEPYRQYLPNYQDTYFYMFSN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g2510.t1 | PANTHER | PTHR13299:SF0 | PEROXISOMAL MEMBRANE PROTEIN PEX16 | 8 | 339 | 6.8E-55 |
| 3 | g2510.t1 | PANTHER | PTHR13299 | UNCHARACTERIZED | 8 | 339 | 6.8E-55 |
| 1 | g2510.t1 | Pfam | PF08610 | Peroxisomal membrane protein (Pex16) | 10 | 332 | 3.0E-64 |
| 4 | g2510.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 117 | - |
| 6 | g2510.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 118 | 137 | - |
| 5 | g2510.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 138 | 341 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K13335 (peroxin-16)
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.
