Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Vacuolar protein sorting-associated protein 26.

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_3 g2645 g2645.t11 TSS g2645.t11 19304175 19304175
chr_3 g2645 g2645.t11 isoform g2645.t11 19305011 19306226
chr_3 g2645 g2645.t11 exon g2645.t11.exon1 19305011 19305027
chr_3 g2645 g2645.t11 exon g2645.t11.exon2 19305101 19305376
chr_3 g2645 g2645.t11 exon g2645.t11.exon3 19305448 19306226
chr_3 g2645 g2645.t11 cds g2645.t11.CDS1 19305495 19306226
chr_3 g2645 g2645.t11 TTS g2645.t11 19307010 19307010

Sequences

>g2645.t11 Gene=g2645 Length=1072
TCTAATGTTCGATTGAGATATTTTCTTCGTGTGACAATTGTTCGACGAATCAGTGATATT
GTACGTGAAATCGATATTGCTGTTCATACATTAAGCAGCTATCCGGAAATGAATAGTCCG
ATCAAAATGGAAGTTGGAATTGAAGACTGCCTTCACATAGAATTTGAGTACAACAAGAGC
AAATATCATCTAAAAGATGTCATTGTGGGAAAAATTTATTTTTTGTTGGTTCGCATCAAA
ATTAAGCATATGGAAATAGCTATAATTAAGAGAGAGACAACTGGTGCTGGTTAGTTCAAA
TGTTTTTACTGAAAATGAAACTATAGCAAAATATGAGATTATGGATGGAGCTCCCGTCAA
AGGCGAAAGTATTCCGATTCGTGTATTTTTAGCTGGCTACGATTTGACGCCAACAATGAG
GGACATTAATAAGAAATTTTCTGTTCGCTATTTTCTCAATTTAGTCCTAATGGATACTGA
AGATCGACGTTATTTTAAACAACAGGAGATCACATTATGGCGTAAGTCAGAAAAGACAAG
AAAATCACTCTCGAATAGCGCAATAGGTGGTACAGCATCAACACAAGGAAGCACCAATAA
TCTGACACAAGCTCAGCAAAATGCAACTATGCCTACACATTTAGTTCAAGGTGCATCCTC
AATTCATACATCGTCTGATATCCAAGGAAGTCACACCTCGCCAGCTAGTTCATCTAATGT
CGTCAGTGCTTCAGCTGCTGTTGATCATCCAAACATGGGACTATTTACAGAAGAAGACAG
TCCACAACATGAAGCGCAATCCAAAACTCGAAGCAATCCATTAGCATTTGACACAGACGA
AGATAAGACACCAAGCAAAGAGGAAGACGACGCACCACTTTCAGCTTCAAAAGAACAACC
ACAACAACAAAAATCTATTGATGAATCATCATCACTCTTTGATGAACCTTCAGCCACGAT
CACCGAGCAACAACAATCACAATCAAATAATACTGCAATAAGCAATAATGACGGTGAAAT
TGAAACATCAGCGGCGACGGCTGATAGAGAAGCATCAACAGCAAAGGATTAA

>g2645.t11 Gene=g2645 Length=243
MDGAPVKGESIPIRVFLAGYDLTPTMRDINKKFSVRYFLNLVLMDTEDRRYFKQQEITLW
RKSEKTRKSLSNSAIGGTASTQGSTNNLTQAQQNATMPTHLVQGASSIHTSSDIQGSHTS
PASSSNVVSASAAVDHPNMGLFTEEDSPQHEAQSKTRSNPLAFDTDEDKTPSKEEDDAPL
SASKEQPQQQKSIDESSSLFDEPSATITEQQQSQSNNTAISNNDGEIETSAATADREAST
AKD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g2645.t11 Gene3D G3DSA:2.60.40.640 - 1 106 1.2E-38
6 g2645.t11 MobiDBLite mobidb-lite consensus disorder prediction 64 84 -
9 g2645.t11 MobiDBLite mobidb-lite consensus disorder prediction 69 84 -
8 g2645.t11 MobiDBLite mobidb-lite consensus disorder prediction 104 130 -
5 g2645.t11 MobiDBLite mobidb-lite consensus disorder prediction 145 243 -
4 g2645.t11 MobiDBLite mobidb-lite consensus disorder prediction 161 181 -
7 g2645.t11 MobiDBLite mobidb-lite consensus disorder prediction 182 236 -
2 g2645.t11 PANTHER PTHR12233:SF5 VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN 26B 1 82 3.1E-32
3 g2645.t11 PANTHER PTHR12233 VACUOLAR PROTEIN SORTING 26 RELATED 1 82 3.1E-32
1 g2645.t11 Pfam PF03643 Vacuolar protein sorting-associated protein 26 1 48 3.4E-20

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

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