Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t15 TSS g10858.t15 12305462 12305462
chr_1 g10858 g10858.t15 isoform g10858.t15 12305765 12306781
chr_1 g10858 g10858.t15 exon g10858.t15.exon1 12305765 12305950
chr_1 g10858 g10858.t15 cds g10858.t15.CDS1 12305819 12305950
chr_1 g10858 g10858.t15 exon g10858.t15.exon2 12306008 12306139
chr_1 g10858 g10858.t15 cds g10858.t15.CDS2 12306008 12306139
chr_1 g10858 g10858.t15 exon g10858.t15.exon3 12306252 12306572
chr_1 g10858 g10858.t15 cds g10858.t15.CDS3 12306252 12306572
chr_1 g10858 g10858.t15 exon g10858.t15.exon4 12306632 12306781
chr_1 g10858 g10858.t15 cds g10858.t15.CDS4 12306632 12306781
chr_1 g10858 g10858.t15 TTS g10858.t15 12307710 12307710

Sequences

>g10858.t15 Gene=g10858 Length=789
AGTGGCGCTAATAAAGTTGACGATGCCATAGAATGTTATCACCGTGCTGCGAATATGTTT
AAAATGGCCAAAAAATGGCAACAAGCAGGATCTGCTTTTTGTGAAGCAGCAAATTTACAT
GCGAAAGCTGGAAGTCGTCATGATGCAGCAACGAATTATGTTGATGCATCAAATTGCTAC
AAAAAGGTTGATCCAAATGAAGCAGTGGCATGTTTGCTCAAAGCAATTGATATTTACACA
GATATGGGTCGGTTTACAATGGCTGCAAAACATCATCAAACAATAGCTGAAATGTTTGAA
AATGAAGCAAATGATTTGCATCGTGCAGTGCAACATTACGAGCAAGCAGCTGATTATTTC
AAGGGCGAAGAGTCAACAAGTTCGGCAAACAAATGCATGCTAAAAGTTGCACAGTATGCA
GCACAATTAGAAGATTATGAAAAGGCAATCCAAATTTACGAATCTGTAGCCGGTTCATGT
CTTGATAGCTCTCTACTCAAGTACAGCGCAAAAGAGTACTTCTTCCGTGCTTCATTGTGT
CATTTGAGTGTAGATTTGCTTAATGCTCAACACGCATTAGACAAGTATGCATCACAATAT
CCAGCATTTCAAGATTCACGTGAATTTAAATTGGTCAAGACTCTAATTGAGCACTTAGAA
GAGCAAAACATCGATGGTTATACAGAAGCTGTAAAAGATTATGACAGCATTTCTCGTTTA
GATCAGTGGTACACTACAATTTTATTGCGTATCAAAAAGCAACATAATGATAATCCAGAT
TTACGATAA

>g10858.t15 Gene=g10858 Length=244
MFKMAKKWQQAGSAFCEAANLHAKAGSRHDAATNYVDASNCYKKVDPNEAVACLLKAIDI
YTDMGRFTMAAKHHQTIAEMFENEANDLHRAVQHYEQAADYFKGEESTSSANKCMLKVAQ
YAAQLEDYEKAIQIYESVAGSCLDSSLLKYSAKEYFFRASLCHLSVDLLNAQHALDKYAS
QYPAFQDSREFKLVKTLIEHLEEQNIDGYTEAVKDYDSISRLDQWYTTILLRIKKQHNDN
PDLR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g10858.t15 CDD cd15832 SNAP 1 235 1.48379E-117
9 g10858.t15 Coils Coil Coil 78 98 -
8 g10858.t15 Coils Coil Coil 118 138 -
7 g10858.t15 Gene3D G3DSA:1.25.40.10 - 1 243 5.8E-104
2 g10858.t15 PANTHER PTHR13768 SOLUBLE NSF ATTACHMENT PROTEIN SNAP 1 243 2.1E-113
3 g10858.t15 PANTHER PTHR13768:SF23 ALPHA-SOLUBLE NSF ATTACHMENT PROTEIN 1 243 2.1E-113
5 g10858.t15 PRINTS PR00448 NSF attachment protein signature 7 26 1.7E-8
4 g10858.t15 PRINTS PR00448 NSF attachment protein signature 214 234 1.7E-8
1 g10858.t15 Pfam PF14938 Soluble NSF attachment protein, SNAP 2 236 7.7E-94
6 g10858.t15 SUPERFAMILY SSF48452 TPR-like 2 240 5.31E-64

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