Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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 g1857 g1857.t2 TSS g1857.t2 13404257 13404257
chr_3 g1857 g1857.t2 isoform g1857.t2 13404554 13405385
chr_3 g1857 g1857.t2 exon g1857.t2.exon1 13404554 13404598
chr_3 g1857 g1857.t2 exon g1857.t2.exon2 13404695 13404915
chr_3 g1857 g1857.t2 exon g1857.t2.exon3 13405012 13405385
chr_3 g1857 g1857.t2 cds g1857.t2.CDS1 13405056 13405385
chr_3 g1857 g1857.t2 TTS g1857.t2 13405790 13405790

Sequences

>g1857.t2 Gene=g1857 Length=640
ATGGGTTTATTTGGTCAATCAAAACAAAAGAATCCACAAGAAATGGTAAAAGAGTGGAAC
GCAAAATTGCGCAAAGAGGGTTACGCACTTGATCGTCAAATACGCTCAATAAAACGAGAA
GAAGATAAAATAAAGAAATCACTTAAAGAGGCTGCAAAGAAAAATGATAAACAAGTTTGC
TCTATTTTAGCAAAGGAAGTTGTCAGATCCAGAAGAGCTGTGAATCGAATTTATGCTAGT
AAAGCTACTCTAAGTTCTGTGCAATTCAACACTTAAAGTCTCTGGATCACTTCAAAAATC
TACAGAAGTAATGGCTGCAATGCAAAAACTCGTCAAACTACCCGAAATTTCCAATACAAT
GCGTGAAATGTCAAGGGAAATGACCAAAGCCGGAATTCTTGAGGAGATGATTGAAGAAAC
AATGGAATCTCTAGAAGATTCAGAAGAAATTGAAGAGGAAGCACAAGGTGAAGTAGATAA
AGTATTATGGGAGCTTACAGATGGCAAACTTGGTGAAGCACCTGCTGTTCCAATAAGCAC
GCCTAATGAACCTGCAGCAAGTACTGCTGTTCAAGATGATGAAGATGAAGAAGAAGAACT
TGAGGATATGAAGAGTCGATTGGAAGCATTGCGATCTTAA

>g1857.t2 Gene=g1857 Length=109
MAAMQKLVKLPEISNTMREMSREMTKAGILEEMIEETMESLEDSEEIEEEAQGEVDKVLW
ELTDGKLGEAPAVPISTPNEPAASTAVQDDEDEEEELEDMKSRLEALRS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g1857.t2 Coils Coil Coil 30 54 -
5 g1857.t2 Coils Coil Coil 87 109 -
4 g1857.t2 MobiDBLite mobidb-lite consensus disorder prediction 69 109 -
2 g1857.t2 PANTHER PTHR10476:SF1 CHARGED MULTIVESICULAR BODY PROTEIN 3 1 109 1.6E-33
3 g1857.t2 PANTHER PTHR10476 CHARGED MULTIVESICULAR BODY PROTEIN 1 109 1.6E-33
1 g1857.t2 Pfam PF03357 Snf7 1 74 5.9E-16

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:0007034 vacuolar 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