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.t2 TSS g10858.t2 12305462 12305462
chr_1 g10858 g10858.t2 isoform g10858.t2 12305534 12306781
chr_1 g10858 g10858.t2 exon g10858.t2.exon1 12305534 12305625
chr_1 g10858 g10858.t2 cds g10858.t2.CDS1 12305534 12305625
chr_1 g10858 g10858.t2 exon g10858.t2.exon2 12305767 12305950
chr_1 g10858 g10858.t2 cds g10858.t2.CDS2 12305767 12305950
chr_1 g10858 g10858.t2 exon g10858.t2.exon3 12306008 12306139
chr_1 g10858 g10858.t2 cds g10858.t2.CDS3 12306008 12306139
chr_1 g10858 g10858.t2 exon g10858.t2.exon4 12306252 12306572
chr_1 g10858 g10858.t2 cds g10858.t2.CDS4 12306252 12306572
chr_1 g10858 g10858.t2 exon g10858.t2.exon5 12306632 12306781
chr_1 g10858 g10858.t2 cds g10858.t2.CDS5 12306632 12306781
chr_1 g10858 g10858.t2 TTS g10858.t2 12307710 12307710

Sequences

>g10858.t2 Gene=g10858 Length=879
ATGGCCGATAATGAGCAAAAAGCATTACAACTTATAGCTGAGGCCGAGAAGAAACTCAAT
TCGTCAAAAGGATTTCTTGGGTCTCTTTTTGGTGGCGCTAATAAAGTTGACGATGCCATA
GAATGTTATCACCGTGCTGCGAATATGTTTAAAATGGCCAAAAAATGGCAACAAGCAGGA
TCTGCTTTTTGTGAAGCAGCAAATTTACATGCGAAAGCTGGAAGTCGTCATGATGCAGCA
ACGAATTATGTTGATGCATCAAATTGCTACAAAAAGGTTGATCCAAATGAAGCAGTGGCA
TGTTTGCTCAAAGCAATTGATATTTACACAGATATGGGTCGGTTTACAATGGCTGCAAAA
CATCATCAAACAATAGCTGAAATGTTTGAAAATGAAGCAAATGATTTGCATCGTGCAGTG
CAACATTACGAGCAAGCAGCTGATTATTTCAAGGGCGAAGAGTCAACAAGTTCGGCAAAC
AAATGCATGCTAAAAGTTGCACAGTATGCAGCACAATTAGAAGATTATGAAAAGGCAATC
CAAATTTACGAATCTGTAGCCGGTTCATGTCTTGATAGCTCTCTACTCAAGTACAGCGCA
AAAGAGTACTTCTTCCGTGCTTCATTGTGTCATTTGAGTGTAGATTTGCTTAATGCTCAA
CACGCATTAGACAAGTATGCATCACAATATCCAGCATTTCAAGATTCACGTGAATTTAAA
TTGGTCAAGACTCTAATTGAGCACTTAGAAGAGCAAAACATCGATGGTTATACAGAAGCT
GTAAAAGATTATGACAGCATTTCTCGTTTAGATCAGTGGTACACTACAATTTTATTGCGT
ATCAAAAAGCAACATAATGATAATCCAGATTTACGATAA

>g10858.t2 Gene=g10858 Length=292
MADNEQKALQLIAEAEKKLNSSKGFLGSLFGGANKVDDAIECYHRAANMFKMAKKWQQAG
SAFCEAANLHAKAGSRHDAATNYVDASNCYKKVDPNEAVACLLKAIDIYTDMGRFTMAAK
HHQTIAEMFENEANDLHRAVQHYEQAADYFKGEESTSSANKCMLKVAQYAAQLEDYEKAI
QIYESVAGSCLDSSLLKYSAKEYFFRASLCHLSVDLLNAQHALDKYASQYPAFQDSREFK
LVKTLIEHLEEQNIDGYTEAVKDYDSISRLDQWYTTILLRIKKQHNDNPDLR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g10858.t2 CDD cd15832 SNAP 7 283 1.12866E-132
13 g10858.t2 Coils Coil Coil 126 146 -
14 g10858.t2 Coils Coil Coil 166 186 -
12 g10858.t2 Gene3D G3DSA:1.25.40.10 - 6 291 2.6E-119
2 g10858.t2 PANTHER PTHR13768 SOLUBLE NSF ATTACHMENT PROTEIN SNAP 4 291 2.0E-130
3 g10858.t2 PANTHER PTHR13768:SF23 ALPHA-SOLUBLE NSF ATTACHMENT PROTEIN 4 291 2.0E-130
5 g10858.t2 PRINTS PR00448 NSF attachment protein signature 35 54 4.2E-69
10 g10858.t2 PRINTS PR00448 NSF attachment protein signature 98 115 4.2E-69
8 g10858.t2 PRINTS PR00448 NSF attachment protein signature 127 144 4.2E-69
4 g10858.t2 PRINTS PR00448 NSF attachment protein signature 160 183 4.2E-69
9 g10858.t2 PRINTS PR00448 NSF attachment protein signature 191 210 4.2E-69
6 g10858.t2 PRINTS PR00448 NSF attachment protein signature 231 251 4.2E-69
7 g10858.t2 PRINTS PR00448 NSF attachment protein signature 262 282 4.2E-69
1 g10858.t2 Pfam PF14938 Soluble NSF attachment protein, SNAP 7 284 7.2E-109
11 g10858.t2 SUPERFAMILY SSF48452 TPR-like 6 288 9.1E-74

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

Pathway

  • This transcript belongs to the following pathways

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