Gene loci information

Transcript annotation

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

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.t1 TSS g5839.t1 12220079 12220079
chr_2 g5839 g5839.t1 isoform g5839.t1 12220147 12221758
chr_2 g5839 g5839.t1 exon g5839.t1.exon1 12220147 12220655
chr_2 g5839 g5839.t1 cds g5839.t1.CDS1 12220147 12220655
chr_2 g5839 g5839.t1 exon g5839.t1.exon2 12220714 12221438
chr_2 g5839 g5839.t1 cds g5839.t1.CDS2 12220714 12221438
chr_2 g5839 g5839.t1 exon g5839.t1.exon3 12221499 12221758
chr_2 g5839 g5839.t1 cds g5839.t1.CDS3 12221499 12221758
chr_2 g5839 g5839.t1 TTS g5839.t1 NA NA

Sequences

>g5839.t1 Gene=g5839 Length=1494
ATGAGCGACATAAGCAATTTTTCAGATGATGACGATTCAAGGCAGGAAGATTGTGCATTA
GTTGATGCACTAAGTGAACTAAATTTTGAAGAAAATAATATTGAAAATATAAGAAAACGT
AAAAATAGCGATAATCAAGAGCAATCAGAGACAAATAGTGACCCATGTAGTTCTAATTCA
TTGAACTTTGTTGATGAGGAATATGACTATTTACATGATTCAGAATGGATAAATCAAAAA
TGTCAAGTTTTTATATTGAGCACAGCAGGAAAACCAATTTATACTTTACATGGCGATGAA
GATAAACTTAATCCACTTTTTGGCCTTTTACAAGCATTAGTTTCAGTAGTGAGTGTATCA
TCAAATGGAAATCCCGATGAAGATGATGATTGCATACGTTCAATAACAGCTAAAAATACT
AAATTTGTATTCCTTATCAAAAACCCATTAATACTAGTTGGTGTGAATAAATCAAAAAGA
AGCGAACAGCAGATTCTTAATCAATTAATGGATGTATATAATCAAATAATTTTTATAGTA
ACGTTGAAGCATATGAAGAATGTTTATGAGAAACGCAATAATTATGACTTACGAAAATTG
GTGGCGGGATCAGAAAGATGGATTGATCATTTGCTTAAAGATGAAAAACAAACGAGGATT
TCAAATAATTCATTTGTTTCATTAATGCATTCTGTTAGAATTCTTCCAATGGAGGCGACT
ACACGTGACAACATCACAAAAACTATACAAACAAATTGCTCTAAAATCAAAAATCTCGTC
TTTGCTGTATTAATTGCTAATAACAAACTCATCACATTAGTTAGAATGAAAAACTACTGC
ATGCATACAGATGACCTAAGATTAATTTTTAATGTTGTTGAATGTAGTGAGAGCTTTAAA
ACAGCAGAGAATTGGCTTCCACTCTGTTTGCCTAAATTTGACCCAAATGGAGCACTTTAT
TGTCATATTTCTTATCTCTCTGATGATTGTGAAGCTTGTTTATTACTCATGACTGTCGAT
CAAGAATCATTTTCAGTACTCTCAAATGCCAAAAAGAATATAACTGAAAAGCTAAGACGC
TCTAATTATATGGAAGCCATTAATGAAGGAATTAAAGATAAGGGTATAAATTTGAAAACG
ATAGGTGTTCCTGACATTCGTCATTTTCTCTATAAAAATAAGAAAAATACACAATTATTG
TGTTCTGAAATAACAACGCCATATAACACTTTAGAACAATTTGAACGTATTGAAGCAATG
TATTATGATTTACATAACAGAATTCATCGTGTGTCAAGACCATTAAAATTAATATATGAA
ATGCATGAACATGAAATTCAACTAGCTTGGGTGACAGCAAATTATGAGTTATATGCCACA
TTTGAACCACTTGTTGAAAAGAAATCAATCATCATAGCTCAAGTAAACAAACTATTAAAA
TATATTAAAAAGGAAGAGGACAAAATATTCATGACTGGTACACATATTTTTTAG

>g5839.t1 Gene=g5839 Length=497
MSDISNFSDDDDSRQEDCALVDALSELNFEENNIENIRKRKNSDNQEQSETNSDPCSSNS
LNFVDEEYDYLHDSEWINQKCQVFILSTAGKPIYTLHGDEDKLNPLFGLLQALVSVVSVS
SNGNPDEDDDCIRSITAKNTKFVFLIKNPLILVGVNKSKRSEQQILNQLMDVYNQIIFIV
TLKHMKNVYEKRNNYDLRKLVAGSERWIDHLLKDEKQTRISNNSFVSLMHSVRILPMEAT
TRDNITKTIQTNCSKIKNLVFAVLIANNKLITLVRMKNYCMHTDDLRLIFNVVECSESFK
TAENWLPLCLPKFDPNGALYCHISYLSDDCEACLLLMTVDQESFSVLSNAKKNITEKLRR
SNYMEAINEGIKDKGINLKTIGVPDIRHFLYKNKKNTQLLCSEITTPYNTLEQFERIEAM
YYDLHNRIHRVSRPLKLIYEMHEHEIQLAWVTANYELYATFEPLVEKKSIIIAQVNKLLK
YIKKEEDKIFMTGTHIF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g5839.t1 Coils Coil Coil 20 47 -
17 g5839.t1 MobiDBLite mobidb-lite consensus disorder prediction 38 58 -
4 g5839.t1 PANTHER PTHR13027 SAND PROTEIN-RELATED 25 495 7.7E-132
5 g5839.t1 PRINTS PR01546 Saccharomyces cerevisiae 73.5kDa hypothetical protein signature 81 98 1.5E-81
14 g5839.t1 PRINTS PR01546 Saccharomyces cerevisiae 73.5kDa hypothetical protein signature 99 119 1.5E-81
8 g5839.t1 PRINTS PR01546 Saccharomyces cerevisiae 73.5kDa hypothetical protein signature 164 192 1.5E-81
13 g5839.t1 PRINTS PR01546 Saccharomyces cerevisiae 73.5kDa hypothetical protein signature 193 205 1.5E-81
7 g5839.t1 PRINTS PR01546 Saccharomyces cerevisiae 73.5kDa hypothetical protein signature 228 249 1.5E-81
11 g5839.t1 PRINTS PR01546 Saccharomyces cerevisiae 73.5kDa hypothetical protein signature 254 267 1.5E-81
6 g5839.t1 PRINTS PR01546 Saccharomyces cerevisiae 73.5kDa hypothetical protein signature 278 294 1.5E-81
16 g5839.t1 PRINTS PR01546 Saccharomyces cerevisiae 73.5kDa hypothetical protein signature 303 326 1.5E-81
10 g5839.t1 PRINTS PR01546 Saccharomyces cerevisiae 73.5kDa hypothetical protein signature 333 359 1.5E-81
15 g5839.t1 PRINTS PR01546 Saccharomyces cerevisiae 73.5kDa hypothetical protein signature 447 461 1.5E-81
12 g5839.t1 PRINTS PR01546 Saccharomyces cerevisiae 73.5kDa hypothetical protein signature 464 477 1.5E-81
9 g5839.t1 PRINTS PR01546 Saccharomyces cerevisiae 73.5kDa hypothetical protein signature 477 497 1.5E-81
1 g5839.t1 Pfam PF19036 First Longin domain of FUZ, MON1 and HPS1 83 211 2.3E-27
3 g5839.t1 Pfam PF19037 Second Longin domain of FUZ, MON1 and HPS1 258 354 1.5E-22
2 g5839.t1 Pfam PF19038 Third Longin domain of FUZ, MON1 and HPS1 386 486 8.1E-21

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5839/g5839.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5839.t1.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

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