Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Vacuolar fusion protein MON1 homolog B.

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_2 g5839 g5839.t4 isoform g5839.t4 12221436 12222915
chr_2 g5839 g5839.t4 exon g5839.t4.exon1 12221436 12222915
chr_2 g5839 g5839.t4 cds g5839.t4.CDS1 12221522 12221758
chr_2 g5839 g5839.t4 TSS g5839.t4 NA NA
chr_2 g5839 g5839.t4 TTS g5839.t4 NA NA

Sequences

>g5839.t4 Gene=g5839 Length=1480
TAGGTAAGAAATTATTAAAATTTAATGACAAGTTAAATTTGAACTTTATCAATTTTTTTT
CAGAACAATTTGAACGTATTGAAGCAATGTATTATGATTTACATAACAGAATTCATCGTG
TGTCAAGACCATTAAAATTAATATATGAAATGCATGAACATGAAATTCAACTAGCTTGGG
TGACAGCAAATTATGAGTTATATGCCACATTTGAACCACTTGTTGAAAAGAAATCAATCA
TCATAGCTCAAGTAAACAAACTATTAAAATATATTAAAAAGGAAGAGGACAAAATATTCA
TGACTGGTACACATATTTTTTAGCCAAGCTTTTTTCGTCTCTTATCTAATTTAGATTATA
CAGCAAATTTCTTTAATGAAGATGAGATTAGATAAGTCATTAAAATATATTTCTAATAAT
TTTCATTTCAATAAATTTATTACACACTCTTTTCTCTTGATGATCTAAAGCATGATAAGT
AATTTAATTTTATTATAATACACAGAATTGTTAATCGCAATAGAACAATTTGTTTTGGCC
TTTTGTAGCCAAAAAAGTGTTTATTTTATACTTTCTAATGAATGTGATAATATATTATAG
CATTGAACGACGATGAAATGTTTAAATTATATTATATCGATATATTTAATAAAAAGTCAA
TCAAACAAAAAATTTACAACAATTGAAATTTGGAATATATTATATTGATCTCTCTCTTTT
TCTTTCATTTTATATATGTGTGTGATTGTGTGTCTTTTTGGAATCGATAGATATCATTAA
AGAAATCTAAATTTCTTTTTATTCCATTAATGATTATGCACTGAATCTTATTGATAGCTT
CATTTCTTCACAAATATTATTATTATATTGATTAACTACATAGATTTAGGATTTTTCTTA
TGTATGTGCCTCTATCACTTCACACTAACTTTTTAATTTGTCTTGTCACCCATTTTGACT
TTGCTGGTCATATAAATTCCGACAATAAGACCGAAAAGACCAATGGCTGAGCCGAAAATT
TCTACAATGAGAATTTTCACAAAAAGACTTGAGTTGGCAGCATCAGCTAATGCAGCTCCA
GATCCAACAATTCCGACAGCTAAACCGCAGAAGAGATTGACTAGACCCACGGCTAATCCT
GCGCCAAACATTACATGTCCTGCCATCCAATTGTTTGCTCTCACTGAATCAACAGTTGCT
GCTGTTTCTGTTGTAAATGGTTCAAGCATACCGGAAAGTACAATGGCTGTAATGAGACCG
TAAATGGCGACAGCTTCACAGAAAATGACTGAAATCAAGTTCTTTGTCTTGATTCTTGGC
GCTTTTACGCCACCACCGACAATTGACACACCAGTCGTGTGAATGCCAATAGCTGCACCA
ACTACTGAGAATGCAACGGAAAATCCGATTCCAAGACAACCCCACATATAAGGACTTGTT
TCTTCTAAGAACCATCCAAATGAAATTCGTTCACCTTGAC

>g5839.t4 Gene=g5839 Length=78
MYYDLHNRIHRVSRPLKLIYEMHEHEIQLAWVTANYELYATFEPLVEKKSIIIAQVNKLL
KYIKKEEDKIFMTGTHIF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g5839.t4 PANTHER PTHR13027:SF13 VACUOLAR FUSION PROTEIN MON1 HOMOLOG B 1 72 0
3 g5839.t4 PANTHER PTHR13027 SAND PROTEIN-RELATED 1 72 0
1 g5839.t4 Pfam PF19038 Third Longin domain of FUZ, MON1 and HPS1 1 67 0

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5839/g5839.t4; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5839.t4.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0006623 protein targeting to vacuole BP
GO:0016192 vesicle-mediated 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. There were no conditions that were differentially expressed