General information for g13625.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein VAC14-like protein.
Parent gene
- The parent gene g13625 is located on chr_1: 31341602..31343362 (+ 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 | g13625 | g13625.t2 | TSS | g13625.t2 | 31341042 | 31341042 |
| chr_1 | g13625 | g13625.t2 | isoform | g13625.t2 | 31341123 | 31341602 |
| chr_1 | g13625 | g13625.t2 | exon | g13625.t2.exon1 | 31341123 | 31341602 |
| chr_1 | g13625 | g13625.t2 | cds | g13625.t2.CDS1 | 31341123 | 31341602 |
| chr_1 | g13625 | g13625.t2 | TTS | g13625.t2 | NA | NA |
Sequences
>g13625.t2 Gene=g13625 Length=480
ATGTCATTAAGTGAAAGTTGTGCAAAAGCATTAGGAGATAAAACATATGATAAAAGAAAA
CTTGCTGCCAATGAAATAGAAAAGATTGTTTTCGAATATAACAAGCAAAAGAATTATGGT
CAGATCAAGAAATTAATTGAAACTTTCTCAACTCAATATTGTGTAAGTAAAGATCCCAAT
AAAAGAAAAGGAGGCCTAATAGCTATTGCTGCTTGTGGAATCGCATTAGGCCATCAAGAT
TCTGCACAATTTATGAATGAACTTTTGATTCCTGTATTAAACAATTTAATGGATAATGAT
ACTCGTGTTCGTTATTTTGCTGCTGAAAGTCTTTATAATATTGCAAAAATAGGAAGAGTT
TCGATTATAACATTATTTCCTGAGATATTTAGCGCTCTCTCACGACTCGTATCTGACTCT
GATGTATCTGTCAAAAATGCAAGTGAACTGCTTGACAGATTATTGAAAGATATTATAACT
>g13625.t2 Gene=g13625 Length=160
MSLSESCAKALGDKTYDKRKLAANEIEKIVFEYNKQKNYGQIKKLIETFSTQYCVSKDPN
KRKGGLIAIAACGIALGHQDSAQFMNELLIPVLNNLMDNDTRVRYFAAESLYNIAKIGRV
SIITLFPEIFSALSRLVSDSDVSVKNASELLDRLLKDIIT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g13625.t2 | Gene3D | G3DSA:1.25.10.10 | - | 1 | 154 | 0.000 |
| 2 | g13625.t2 | PANTHER | PTHR16023:SF0 | PROTEIN VAC14 HOMOLOG | 6 | 160 | 0.000 |
| 3 | g13625.t2 | PANTHER | PTHR16023 | TAX1 BINDING PROTEIN-RELATED | 6 | 160 | 0.000 |
| 1 | g13625.t2 | Pfam | PF12755 | Vacuolar 14 Fab1-binding region | 60 | 157 | 0.000 |
| 6 | g13625.t2 | ProSiteProfiles | PS50077 | HEAT repeat profile. | 89 | 124 | 9.646 |
| 4 | g13625.t2 | SUPERFAMILY | SSF48371 | ARM repeat | 8 | 157 | 0.000 |
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:0070772 | PAS complex | CC |
| GO:0006661 | phosphatidylinositol biosynthetic process | BP |
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.
