General information for g10858.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t10 | TSS | g10858.t10 | 12305462 | 12305462 |
| chr_1 | g10858 | g10858.t10 | isoform | g10858.t10 | 12305534 | 12306781 |
| chr_1 | g10858 | g10858.t10 | exon | g10858.t10.exon1 | 12305534 | 12305625 |
| chr_1 | g10858 | g10858.t10 | cds | g10858.t10.CDS1 | 12305534 | 12305625 |
| chr_1 | g10858 | g10858.t10 | exon | g10858.t10.exon2 | 12305767 | 12305950 |
| chr_1 | g10858 | g10858.t10 | cds | g10858.t10.CDS2 | 12305767 | 12305950 |
| chr_1 | g10858 | g10858.t10 | exon | g10858.t10.exon3 | 12306008 | 12306139 |
| chr_1 | g10858 | g10858.t10 | cds | g10858.t10.CDS3 | 12306008 | 12306139 |
| chr_1 | g10858 | g10858.t10 | exon | g10858.t10.exon4 | 12306252 | 12306781 |
| chr_1 | g10858 | g10858.t10 | cds | g10858.t10.CDS4 | 12306252 | 12306638 |
| chr_1 | g10858 | g10858.t10 | TTS | g10858.t10 | 12307710 | 12307710 |
Sequences
>g10858.t10 Gene=g10858 Length=938
ATGGCCGATAATGAGCAAAAAGCATTACAACTTATAGCTGAGGCCGAGAAGAAACTCAAT
TCGTCAAAAGGATTTCTTGGGTCTCTTTTTGGTGGCGCTAATAAAGTTGACGATGCCATA
GAATGTTATCACCGTGCTGCGAATATGTTTAAAATGGCCAAAAAATGGCAACAAGCAGGA
TCTGCTTTTTGTGAAGCAGCAAATTTACATGCGAAAGCTGGAAGTCGTCATGATGCAGCA
ACGAATTATGTTGATGCATCAAATTGCTACAAAAAGGTTGATCCAAATGAAGCAGTGGCA
TGTTTGCTCAAAGCAATTGATATTTACACAGATATGGGTCGGTTTACAATGGCTGCAAAA
CATCATCAAACAATAGCTGAAATGTTTGAAAATGAAGCAAATGATTTGCATCGTGCAGTG
CAACATTACGAGCAAGCAGCTGATTATTTCAAGGGCGAAGAGTCAACAAGTTCGGCAAAC
AAATGCATGCTAAAAGTTGCACAGTATGCAGCACAATTAGAAGATTATGAAAAGGCAATC
CAAATTTACGAATCTGTAGCCGGTTCATGTCTTGATAGCTCTCTACTCAAGTACAGCGCA
AAAGAGTACTTCTTCCGTGCTTCATTGTGTCATTTGAGTGTAGATTTGCTTAATGCTCAA
CACGCATTAGACAAGTATGCATCACAATATCCAGCATTTCAAGATTCACGTGAATTTAAA
TTGGTCAAGGTATGTAAAAATAATAAAAATAAGAAGATAGAAAAACTCATATCTCTTTGT
TTTTATAGACTCTAATTGAGCACTTAGAAGAGCAAAACATCGATGGTTATACAGAAGCTG
TAAAAGATTATGACAGCATTTCTCGTTTAGATCAGTGGTACACTACAATTTTATTGCGTA
TCAAAAAGCAACATAATGATAATCCAGATTTACGATAA
>g10858.t10 Gene=g10858 Length=264
MADNEQKALQLIAEAEKKLNSSKGFLGSLFGGANKVDDAIECYHRAANMFKMAKKWQQAG
SAFCEAANLHAKAGSRHDAATNYVDASNCYKKVDPNEAVACLLKAIDIYTDMGRFTMAAK
HHQTIAEMFENEANDLHRAVQHYEQAADYFKGEESTSSANKCMLKVAQYAAQLEDYEKAI
QIYESVAGSCLDSSLLKYSAKEYFFRASLCHLSVDLLNAQHALDKYASQYPAFQDSREFK
LVKVCKNNKNKKIEKLISLCFYRL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g10858.t10 | CDD | cd15832 | SNAP | 7 | 243 | 1.61367E-109 |
| 12 | g10858.t10 | Coils | Coil | Coil | 126 | 146 | - |
| 13 | g10858.t10 | Coils | Coil | Coil | 166 | 186 | - |
| 11 | g10858.t10 | Gene3D | G3DSA:1.25.40.10 | - | 6 | 259 | 7.4E-99 |
| 2 | g10858.t10 | PANTHER | PTHR13768 | SOLUBLE NSF ATTACHMENT PROTEIN SNAP | 4 | 248 | 1.2E-105 |
| 3 | g10858.t10 | PANTHER | PTHR13768:SF23 | ALPHA-SOLUBLE NSF ATTACHMENT PROTEIN | 4 | 248 | 1.2E-105 |
| 5 | g10858.t10 | PRINTS | PR00448 | NSF attachment protein signature | 35 | 54 | 3.7E-54 |
| 9 | g10858.t10 | PRINTS | PR00448 | NSF attachment protein signature | 98 | 115 | 3.7E-54 |
| 7 | g10858.t10 | PRINTS | PR00448 | NSF attachment protein signature | 127 | 144 | 3.7E-54 |
| 4 | g10858.t10 | PRINTS | PR00448 | NSF attachment protein signature | 160 | 183 | 3.7E-54 |
| 8 | g10858.t10 | PRINTS | PR00448 | NSF attachment protein signature | 191 | 210 | 3.7E-54 |
| 6 | g10858.t10 | PRINTS | PR00448 | NSF attachment protein signature | 231 | 251 | 3.7E-54 |
| 1 | g10858.t10 | Pfam | PF14938 | Soluble NSF attachment protein, SNAP | 7 | 256 | 4.9E-90 |
| 10 | g10858.t10 | SUPERFAMILY | SSF48452 | TPR-like | 6 | 246 | 2.02E-59 |
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.
