General information for g10858.t17
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Alpha-soluble NSF attachment protein.
Parent gene
- The parent gene g10858 is located on chr_1: 12306398..12307276 (+ 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 | g10858 | g10858.t17 | TSS | g10858.t17 | 12305462 | 12305462 |
| chr_1 | g10858 | g10858.t17 | isoform | g10858.t17 | 12306398 | 12306781 |
| chr_1 | g10858 | g10858.t17 | exon | g10858.t17.exon1 | 12306398 | 12306572 |
| chr_1 | g10858 | g10858.t17 | cds | g10858.t17.CDS1 | 12306399 | 12306572 |
| chr_1 | g10858 | g10858.t17 | exon | g10858.t17.exon2 | 12306632 | 12306781 |
| chr_1 | g10858 | g10858.t17 | cds | g10858.t17.CDS2 | 12306632 | 12306781 |
| chr_1 | g10858 | g10858.t17 | TTS | g10858.t17 | 12307710 | 12307710 |
Sequences
>g10858.t17 Gene=g10858 Length=325
TGTAGCCGGTTCATGTCTTGATAGCTCTCTACTCAAGTACAGCGCAAAAGAGTACTTCTT
CCGTGCTTCATTGTGTCATTTGAGTGTAGATTTGCTTAATGCTCAACACGCATTAGACAA
GTATGCATCACAATATCCAGCATTTCAAGATTCACGTGAATTTAAATTGGTCAAGACTCT
AATTGAGCACTTAGAAGAGCAAAACATCGATGGTTATACAGAAGCTGTAAAAGATTATGA
CAGCATTTCTCGTTTAGATCAGTGGTACACTACAATTTTATTGCGTATCAAAAAGCAACA
TAATGATAATCCAGATTTACGATAA
>g10858.t17 Gene=g10858 Length=107
VAGSCLDSSLLKYSAKEYFFRASLCHLSVDLLNAQHALDKYASQYPAFQDSREFKLVKTL
IEHLEEQNIDGYTEAVKDYDSISRLDQWYTTILLRIKKQHNDNPDLR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g10858.t17 | Gene3D | G3DSA:1.25.40.10 | - | 1 | 106 | 0 |
| 2 | g10858.t17 | PANTHER | PTHR13768 | SOLUBLE NSF ATTACHMENT PROTEIN SNAP | 2 | 106 | 0 |
| 3 | g10858.t17 | PANTHER | PTHR13768:SF23 | ALPHA-SOLUBLE NSF ATTACHMENT PROTEIN | 2 | 106 | 0 |
| 4 | g10858.t17 | PRINTS | PR00448 | NSF attachment protein signature | 6 | 25 | 0 |
| 5 | g10858.t17 | PRINTS | PR00448 | NSF attachment protein signature | 46 | 66 | 0 |
| 6 | g10858.t17 | PRINTS | PR00448 | NSF attachment protein signature | 77 | 97 | 0 |
| 1 | g10858.t17 | Pfam | PF14938 | Soluble NSF attachment protein, SNAP | 1 | 99 | 0 |
| 7 | g10858.t17 | SUPERFAMILY | SSF48452 | TPR-like | 4 | 103 | 0 |
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:0006886 | intracellular protein transport | BP |
| GO:0005515 | protein binding | MF |
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.
