Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Alpha-soluble NSF attachment protein.

Parent gene

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.t9 TSS g10858.t9 12305462 12305462
chr_1 g10858 g10858.t9 isoform g10858.t9 12305534 12306273
chr_1 g10858 g10858.t9 exon g10858.t9.exon1 12305534 12305625
chr_1 g10858 g10858.t9 cds g10858.t9.CDS1 12305534 12305625
chr_1 g10858 g10858.t9 exon g10858.t9.exon2 12305767 12305950
chr_1 g10858 g10858.t9 cds g10858.t9.CDS2 12305767 12305950
chr_1 g10858 g10858.t9 exon g10858.t9.exon3 12306008 12306139
chr_1 g10858 g10858.t9 cds g10858.t9.CDS3 12306008 12306139
chr_1 g10858 g10858.t9 exon g10858.t9.exon4 12306262 12306273
chr_1 g10858 g10858.t9 cds g10858.t9.CDS4 12306262 12306273
chr_1 g10858 g10858.t9 TTS g10858.t9 12307173 12307173

Sequences

>g10858.t9 Gene=g10858 Length=420
ATGGCCGATAATGAGCAAAAAGCATTACAACTTATAGCTGAGGCCGAGAAGAAACTCAAT
TCGTCAAAAGGATTTCTTGGGTCTCTTTTTGGTGGCGCTAATAAAGTTGACGATGCCATA
GAATGTTATCACCGTGCTGCGAATATGTTTAAAATGGCCAAAAAATGGCAACAAGCAGGA
TCTGCTTTTTGTGAAGCAGCAAATTTACATGCGAAAGCTGGAAGTCGTCATGATGCAGCA
ACGAATTATGTTGATGCATCAAATTGCTACAAAAAGGTTGATCCAAATGAAGCAGTGGCA
TGTTTGCTCAAAGCAATTGATATTTACACAGATATGGGTCGGTTTACAATGGCTGCAAAA
CATCATCAAACAATAGCTGAAATGTTTGAAAATGAAGCAAATGATTTGTGCAACATTACG

>g10858.t9 Gene=g10858 Length=140
MADNEQKALQLIAEAEKKLNSSKGFLGSLFGGANKVDDAIECYHRAANMFKMAKKWQQAG
SAFCEAANLHAKAGSRHDAATNYVDASNCYKKVDPNEAVACLLKAIDIYTDMGRFTMAAK
HHQTIAEMFENEANDLCNIT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g10858.t9 Gene3D G3DSA:1.25.40.10 - 6 138 0
2 g10858.t9 PANTHER PTHR13768 SOLUBLE NSF ATTACHMENT PROTEIN SNAP 2 136 0
3 g10858.t9 PANTHER PTHR13768:SF12 BETA-SOLUBLE NSF ATTACHMENT PROTEIN 2 136 0
4 g10858.t9 PRINTS PR00448 NSF attachment protein signature 35 54 0
5 g10858.t9 PRINTS PR00448 NSF attachment protein signature 98 115 0
6 g10858.t9 PRINTS PR00448 NSF attachment protein signature 127 140 0
1 g10858.t9 Pfam PF14938 Soluble NSF attachment protein, SNAP 7 136 0
7 g10858.t9 SUPERFAMILY SSF48452 TPR-like 6 134 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.

Raw TPM values