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.t13 TSS g10858.t13 12305462 12305462
chr_1 g10858 g10858.t13 isoform g10858.t13 12305534 12307276
chr_1 g10858 g10858.t13 exon g10858.t13.exon1 12305534 12305625
chr_1 g10858 g10858.t13 cds g10858.t13.CDS1 12305534 12305625
chr_1 g10858 g10858.t13 exon g10858.t13.exon2 12305764 12305950
chr_1 g10858 g10858.t13 cds g10858.t13.CDS2 12305764 12305950
chr_1 g10858 g10858.t13 exon g10858.t13.exon3 12306008 12306139
chr_1 g10858 g10858.t13 cds g10858.t13.CDS3 12306008 12306139
chr_1 g10858 g10858.t13 exon g10858.t13.exon4 12306252 12306398
chr_1 g10858 g10858.t13 cds g10858.t13.CDS4 12306252 12306398
chr_1 g10858 g10858.t13 exon g10858.t13.exon5 12306440 12306572
chr_1 g10858 g10858.t13 cds g10858.t13.CDS5 12306440 12306496
chr_1 g10858 g10858.t13 exon g10858.t13.exon6 12306632 12307276
chr_1 g10858 g10858.t13 TTS g10858.t13 12307710 12307710

Sequences

>g10858.t13 Gene=g10858 Length=1336
ATGGCCGATAATGAGCAAAAAGCATTACAACTTATAGCTGAGGCCGAGAAGAAACTCAAT
TCGTCAAAAGGATTTCTTGGGTCTCTTTTTGGTAGTGGCGCTAATAAAGTTGACGATGCC
ATAGAATGTTATCACCGTGCTGCGAATATGTTTAAAATGGCCAAAAAATGGCAACAAGCA
GGATCTGCTTTTTGTGAAGCAGCAAATTTACATGCGAAAGCTGGAAGTCGTCATGATGCA
GCAACGAATTATGTTGATGCATCAAATTGCTACAAAAAGGTTGATCCAAATGAAGCAGTG
GCATGTTTGCTCAAAGCAATTGATATTTACACAGATATGGGTCGGTTTACAATGGCTGCA
AAACATCATCAAACAATAGCTGAAATGTTTGAAAATGAAGCAAATGATTTGCATCGTGCA
GTGCAACATTACGAGCAAGCAGCTGATTATTTCAAGGGCGAAGAGTCAACAAGTTCGGCA
AACAAATGCATGCTAAAAGTTGCACAGTATGCAGCACAATTAGAAGATTATGAAAAGGCA
ATCCAAATTTACGAATCTCGCAAAAGAGTACTTCTTCCGTGCTTCATTGTGTCATTTGAG
TGTAGATTTGCTTAATGCTCAACACGCATTAGACAAGTATGCATCACAATATCCAGCATT
TCAAGATTCACGTGAATTTAAATTGGTCAAGACTCTAATTGAGCACTTAGAAGAGCAAAA
CATCGATGGTTATACAGAAGCTGTAAAAGATTATGACAGCATTTCTCGTTTAGATCAGTG
GTACACTACAATTTTATTGCGTATCAAAAAGCAACATAATGATAATCCAGATTTACGATA
AATTGTCAATACTTGCTCTAGTTCTCCCATTGCGAAACTCAATGATGCAAAAGATGAAGA
AGGTGAAAGAATTCCATTTTATGTCGTTTTTTTAAAATTTAGCATAAAAGAGTAAAATTC
CTAATCGTTTTTAGGAGTAAATTTTTGTCCATCAATAACTTACTTACACATTATTATTAT
TTTTTTGTTGTAAACTATAAACGCATGCAAAAAAATTAAAAAAAAACTAACGAAAAAATA
AAATTATTACAATGATACATTTCTGATATATCTCTAGTGATAAGAACTCTTTAAAAAGAA
GAAATTGAAAAATATTTAAATATAATATGATGTTATAGCTTATTTGATGCTGTTATTTTT
TTATTTGATCATTAAAAGTTTTAAGTTAAAAATGAGTCATGGGTTTTCTCACTTTTTTAT
TCATATTTTTTGTAACTAAAACGTTGCATTTTGTTTATCTCGAATGTGTACATACACATA
GTCGTTGTGCATAAAT

>g10858.t13 Gene=g10858 Length=204
MADNEQKALQLIAEAEKKLNSSKGFLGSLFGSGANKVDDAIECYHRAANMFKMAKKWQQA
GSAFCEAANLHAKAGSRHDAATNYVDASNCYKKVDPNEAVACLLKAIDIYTDMGRFTMAA
KHHQTIAEMFENEANDLHRAVQHYEQAADYFKGEESTSSANKCMLKVAQYAAQLEDYEKA
IQIYESRKRVLLPCFIVSFECRFA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g10858.t13 CDD cd15832 SNAP 7 185 1.06305E-83
11 g10858.t13 Coils Coil Coil 127 147 -
10 g10858.t13 Coils Coil Coil 167 187 -
9 g10858.t13 Gene3D G3DSA:1.25.40.10 - 6 192 5.3E-75
2 g10858.t13 PANTHER PTHR13768 SOLUBLE NSF ATTACHMENT PROTEIN SNAP 4 186 3.1E-78
3 g10858.t13 PANTHER PTHR13768:SF23 ALPHA-SOLUBLE NSF ATTACHMENT PROTEIN 4 186 3.1E-78
7 g10858.t13 PRINTS PR00448 NSF attachment protein signature 36 55 2.1E-36
5 g10858.t13 PRINTS PR00448 NSF attachment protein signature 99 116 2.1E-36
4 g10858.t13 PRINTS PR00448 NSF attachment protein signature 128 145 2.1E-36
6 g10858.t13 PRINTS PR00448 NSF attachment protein signature 161 184 2.1E-36
1 g10858.t13 Pfam PF14938 Soluble NSF attachment protein, SNAP 7 186 1.0E-68
8 g10858.t13 SUPERFAMILY SSF48452 TPR-like 6 186 5.69E-49

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