Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Elongation of very long chain fatty acids protein AAEL008004.

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 g3679 g3679.t20 TSS g3679.t20 27378040 27378040
chr_3 g3679 g3679.t20 isoform g3679.t20 27379020 27379743
chr_3 g3679 g3679.t20 exon g3679.t20.exon1 27379020 27379312
chr_3 g3679 g3679.t20 cds g3679.t20.CDS1 27379136 27379312
chr_3 g3679 g3679.t20 exon g3679.t20.exon2 27379402 27379533
chr_3 g3679 g3679.t20 cds g3679.t20.CDS2 27379402 27379533
chr_3 g3679 g3679.t20 exon g3679.t20.exon3 27379600 27379743
chr_3 g3679 g3679.t20 cds g3679.t20.CDS3 27379600 27379743
chr_3 g3679 g3679.t20 TTS g3679.t20 27380148 27380148

Sequences

>g3679.t20 Gene=g3679 Length=569
GCGGCTGCTATGTATATTTCATTGCCAAACTTACTGAACTCTTGGACACAATTTTCTTTG
TACTTCGAAAAAAAGATAATCAGGTGTCTTTTCTGCATCTGTATCATCACACAGTAATGC
CCATGATTTCATGGGGTTGTACTAAGTATTTCCCTGGCGGCCATGGTACTTTTATCGGCG
TAATTAACTCTTTTGTTCATATTGTTATGTACTTTTACTATATGATGGCTGCTATGGGAC
CTGAATTCCATAAATATTTATGGTGGAAACATTGGATCACTAACTTACAAATGATTCAAT
TCGGTATGGCTTTCTTGCACTCTGCTCAATTATTATACACAGATTGCGGTTATCCACGCT
GGTCTGTCTGCTTCACACTGCCAAATGCTATCTTTTTCTACATGCTCTTTAACGATTTTT
ACAAGAAATCATATACGAAGAAAGGTAAGGGAAAGAAGGTTGCAAATGGAAAAATTAAGC
AAGCAAATGGCAAAACAAACGGTCACATTGTACATGATATCAATCACAACGAAACAAAGC
CTGATGAGGATAAAAGAAAAAGTGAATAG

>g3679.t20 Gene=g3679 Length=150
MPMISWGCTKYFPGGHGTFIGVINSFVHIVMYFYYMMAAMGPEFHKYLWWKHWITNLQMI
QFGMAFLHSAQLLYTDCGYPRWSVCFTLPNAIFFYMLFNDFYKKSYTKKGKGKKVANGKI
KQANGKTNGHIVHDINHNETKPDEDKRKSE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g3679.t20 MobiDBLite mobidb-lite consensus disorder prediction 131 150 -
7 g3679.t20 MobiDBLite mobidb-lite consensus disorder prediction 132 150 -
2 g3679.t20 PANTHER PTHR11157 FATTY ACID ACYL TRANSFERASE-RELATED 1 114 5.0E-65
3 g3679.t20 PANTHER PTHR11157:SF153 ELONGATION OF VERY LONG CHAIN FATTY ACIDS PROTEIN 1 114 5.0E-65
1 g3679.t20 Pfam PF01151 GNS1/SUR4 family 1 113 5.5E-27
11 g3679.t20 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
15 g3679.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 35 -
10 g3679.t20 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 36 46 -
13 g3679.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 47 67 -
12 g3679.t20 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 68 78 -
14 g3679.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 79 98 -
9 g3679.t20 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 99 150 -
6 g3679.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 15 34 -
5 g3679.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 47 69 -
4 g3679.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 79 98 -

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:0016021 integral component of 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. There were no conditions that were differentially expressed