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 g3955 g3955.t6 isoform g3955.t6 29255614 29257091
chr_3 g3955 g3955.t6 exon g3955.t6.exon1 29255614 29255682
chr_3 g3955 g3955.t6 exon g3955.t6.exon2 29255789 29255981
chr_3 g3955 g3955.t6 exon g3955.t6.exon3 29256041 29256415
chr_3 g3955 g3955.t6 cds g3955.t6.CDS1 29256239 29256415
chr_3 g3955 g3955.t6 exon g3955.t6.exon4 29256668 29256901
chr_3 g3955 g3955.t6 cds g3955.t6.CDS2 29256668 29256901
chr_3 g3955 g3955.t6 exon g3955.t6.exon5 29256969 29257091
chr_3 g3955 g3955.t6 cds g3955.t6.CDS3 29256969 29257091
chr_3 g3955 g3955.t6 TTS g3955.t6 29257426 29257426
chr_3 g3955 g3955.t6 TSS g3955.t6 NA NA

Sequences

>g3955.t6 Gene=g3955 Length=994
GTACAATCATGGCTCACTTATTAACAGACCTGTACGATTGGTACAATGACTTGATGGACA
ATCGTTCAGATTCTCGTGTCAAAGATTGGCCAATGATGCAGTCACCAATCCCAACATTAC
TGCTCTGCATGAGTTACGCATTTTTCTGTAAATCACTGGCTCCCCGCCTGATGAAAAATC
GCAAACCATTTGATCTTAGAAAAACTCTAGTTGTATACAATCTGTTTCAAACAGTATTCA
GTGCATGGATATTTTATGAGGTTATTTACAAAGTGGTTGGCTGCGTGATTATAGCTATAG
ATGTCAACCAGTCGATTATTCGCCTAAAGGATTTAGAATGGCTGAAACATGCTGGTGGTA
CTACATCTCCAAATTTACAGAGTTCTTCGATACATTTTTCTTCATACTGAGGAAAAAATA
TCAACATGTTTCAACCCTTCATGTCATTCATCACGGTGTTATGCCATTCAGTGTATGGAT
GGGAATGAAGTTCGCTCCGGGCGGTCACAGTACCTTTTTTGCAATGCTCAATGCTTTTGT
ACATATTGTCATGTATTTTTATTACATGCTGGCTGCAATGGGTCCACAAGTGCAGAAATA
TTTATGGTGGAAGCGATATTTAACGGCGTTTCAAATGGTTCAATTTGTGGCCATTTTCAC
ACATCAGTTCCAATTATTATGGACAGAGTGCGATTATCCAAAAGGCTTCATGGTGTGGAT
TGGTCTGCACGGCATCATGTTTCTCTTTCTTTTCTCAGATTTTTATAAACAGAGTTATAT
TAATAAGAAGGAAAAAGTTCGAGCTCTTAAAAAAGAGTCTGAAAATGGCAAATTATATCT
CAATGGAGATAGCAAAATTCATAGTTCTCTGTCAAATCATCAAGAAGAACATCTAAATGG
AGGAACTTATCTCAATGGACACATAGAGAAGAATGGACAAATCATCACAAACGGTATCAA
TGCAACTAATGGTTCAATTAGATCAAGAAAATGA

>g3955.t6 Gene=g3955 Length=177
MPFSVWMGMKFAPGGHSTFFAMLNAFVHIVMYFYYMLAAMGPQVQKYLWWKRYLTAFQMV
QFVAIFTHQFQLLWTECDYPKGFMVWIGLHGIMFLFLFSDFYKQSYINKKEKVRALKKES
ENGKLYLNGDSKIHSSLSNHQEEHLNGGTYLNGHIEKNGQIITNGINATNGSIRSRK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g3955.t6 PANTHER PTHR11157 FATTY ACID ACYL TRANSFERASE-RELATED 1 127 1.6E-55
3 g3955.t6 PANTHER PTHR11157:SF151 ELONGATION OF VERY LONG CHAIN FATTY ACIDS PROTEIN 1 127 1.6E-55
1 g3955.t6 Pfam PF01151 GNS1/SUR4 family 2 112 4.3E-28
10 g3955.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 19 -
11 g3955.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 41 -
8 g3955.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 42 52 -
13 g3955.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 53 71 -
9 g3955.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 72 82 -
12 g3955.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 83 102 -
7 g3955.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 103 177 -
5 g3955.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 15 37 -
4 g3955.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 50 72 -
6 g3955.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 82 99 -

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.

Raw TPM values