General information for g13853.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g13853 is located on chr_1: 32843995..32847370 (+ 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 | g13853 | g13853.t3 | TSS | g13853.t3 | 32843168 | 32843168 |
| chr_1 | g13853 | g13853.t3 | isoform | g13853.t3 | 32843293 | 32844157 |
| chr_1 | g13853 | g13853.t3 | exon | g13853.t3.exon1 | 32843293 | 32843995 |
| chr_1 | g13853 | g13853.t3 | cds | g13853.t3.CDS1 | 32843704 | 32843995 |
| chr_1 | g13853 | g13853.t3 | exon | g13853.t3.exon2 | 32844054 | 32844157 |
| chr_1 | g13853 | g13853.t3 | cds | g13853.t3.CDS2 | 32844054 | 32844157 |
| chr_1 | g13853 | g13853.t3 | TTS | g13853.t3 | 32844245 | 32844245 |
Sequences
>g13853.t3 Gene=g13853 Length=807
ATGGAAATACTGAATTCTGGTTTTCATCGGTAAGTTTTCATTTAAATTTATTTCAAAATA
ATTTGTGTAATGAAATGAAAAGTTGCAAAAGATCCTATTGAGACGGTTCAGAAAATTCAA
CTTTTATAAACTGTTAATTACTGTATAGCGTTGGTTATTCAGAATTATATATATCATAAA
ACTCAATTTAATCAAAATTTTATTTATTTTTATAGAGAATTAAAATACAGTCTAAAATTT
GCACCCGTTATAAGTTGTGAAGTGCTGCTCGTACAAGAAATTCCAAGTTCTGTGTATGTG
GATGTGGATCAGTTATTCAACCTCAACAAATTAAATAAAATCAAAACCTTTGTTCCTTAT
TACATCGATGTAGAATTACCGACATCAAAATCGAGTCCATTTAAAGTATACATGTTTGAG
AATGTTAGAAAATCAGTAAACATCACATTACCACTTCATTTTCGATATCATGAACCGAGT
GACAAAAAGTTCAATCGAGTAGAAATTGAGTCACCAAAAATATATTTATCGAATTGTCCT
GTCAGCAGAGGTCAAGGAGTTCTTCTTCCATGCAGAAATTCATCCGAGATAACAGACTTT
TTAGAACTCGCATCTGCATCATTTTGTGAATGGACTGAAACGCAATATAGCACACCCATA
ACATTAAGTTTTTTGATTCCAGTCGGAAATATAAAATCTTATGCATTCGTTCTACCTATA
ACAATTTTCATAAGTTGGATTGCGTGTCTGTTTCTCACGTATGTCATTATTAAGAAATCA
AGAGAGATTAGTAAGAAAGTGCTATGA
>g13853.t3 Gene=g13853 Length=131
MFENVRKSVNITLPLHFRYHEPSDKKFNRVEIESPKIYLSNCPVSRGQGVLLPCRNSSEI
TDFLELASASFCEWTETQYSTPITLSFLIPVGNIKSYAFVLPITIFISWIACLFLTYVII
KKSREISKKVL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g13853.t3 | PANTHER | PTHR28650 | PHOSPHATIDYLINOSITOL-GLYCAN BIOSYNTHESIS CLASS X PROTEIN | 8 | 130 | 1.3E-13 |
| 1 | g13853.t3 | Pfam | PF08320 | PIG-X / PBN1 | 6 | 119 | 1.9E-16 |
| 5 | g13853.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 96 | - |
| 6 | g13853.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 97 | 120 | - |
| 4 | g13853.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 121 | 131 | - |
| 3 | g13853.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 97 | 119 | - |
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:0006506 | GPI anchor biosynthetic process | BP |
| GO:0005789 | endoplasmic reticulum membrane | CC |
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. There were no conditions that were differentially expressed