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_1 g12710 g12710.t14 TTS g12710.t14 25414039 25414039
chr_1 g12710 g12710.t14 isoform g12710.t14 25414098 25414934
chr_1 g12710 g12710.t14 exon g12710.t14.exon1 25414098 25414934
chr_1 g12710 g12710.t14 cds g12710.t14.CDS1 25414443 25414775
chr_1 g12710 g12710.t14 TSS g12710.t14 25415638 25415638

Sequences

>g12710.t14 Gene=g12710 Length=837
TACATTCAAAATTTCTCAGCACTTGCATATAACCGTGAAGTTAAATCAGAGAGTGAAGCA
ACTGTATCATACTCATTCCTTCCATCAGAACAATTTGCTGGTCGTCCTTTTGGTTTGAAT
ATTGCCATTAGTTATCGTGATTCAACTGGTGCAGGTTTTATGGAAGCAGTTTTCAATGAA
ACTGTTCTCATCACAGAATTAGATGAAGGTCTTGATGGCGAAACATTCTTTTTATATGTG
TTCTTTGCAGCTATTTTTGTTTTACTTCTTGTTGTTGGACAACAATTCCTCGGTTCAATT
GGCAAGAAGAAACGTTCACAAAACATTCGTAAGCAAGTTGAGACTGGTACATCAAATAAC
ACCGATATTGATTATGAATGGCTTCCTGCTCAAACAATTAGAAATTTACAAAATTCACCA
AATGGCAAAGGAAAAATCTCGCCAAAACAGAGTCCAAGACAACGTTCAAAACGTGCTGCA
AAGGAAGATTAAGAAACGAATTTTTAAAGAGTTGTTAATTTCATCCCCTCTATGAGATTC
ATACCTATGAGCAAGTCAAGCTTCTCTAGAAATCCAATAAAACACATAAACCACATAAAT
TTTAATAGAACAACTTAAAAATTCATCGTAATACTTACCCTATGTTGTCTTCAAATCATT
ATGCATGGAGCATAATTAAAACTTTTTTTTTGATCTTGCAATAGTTGATTCATAGAGTAT
AAGTGTTTTGCGTTTAAGATTCCAATTCTTATCTTTTTGTTGCAAGATCACACCAATCAT
TATCATTTTATAATTGAAAAGAAAAAGAGTAAAAAGAGATCATCAATGATGTTTGTT

>g12710.t14 Gene=g12710 Length=110
MEAVFNETVLITELDEGLDGETFFLYVFFAAIFVLLLVVGQQFLGSIGKKKRSQNIRKQV
ETGTSNNTDIDYEWLPAQTIRNLQNSPNGKGKISPKQSPRQRSKRAAKED

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g12710.t14 MobiDBLite mobidb-lite consensus disorder prediction 81 110 -
6 g12710.t14 MobiDBLite mobidb-lite consensus disorder prediction 81 96 -
2 g12710.t14 PANTHER PTHR12924:SF0 TRANSLOCON-ASSOCIATED PROTEIN SUBUNIT ALPHA 2 103 4.6E-22
3 g12710.t14 PANTHER PTHR12924 TRANSLOCON-ASSOCIATED PROTEIN, ALPHA SUBUNIT 2 103 4.6E-22
1 g12710.t14 Pfam PF03896 Translocon-associated protein (TRAP), alpha subunit 2 109 3.8E-42
8 g12710.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 22 -
9 g12710.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 23 44 -
7 g12710.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 45 110 -
4 g12710.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 23 45 -

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:0005789 endoplasmic reticulum membrane CC

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