Gene loci information

Transcript annotation

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

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 g4784 g4784.t4 TTS g4784.t4 4952994 4952994
chr_2 g4784 g4784.t4 isoform g4784.t4 4953170 4954063
chr_2 g4784 g4784.t4 exon g4784.t4.exon1 4953170 4953630
chr_2 g4784 g4784.t4 cds g4784.t4.CDS1 4953170 4953630
chr_2 g4784 g4784.t4 exon g4784.t4.exon2 4953695 4953830
chr_2 g4784 g4784.t4 cds g4784.t4.CDS2 4953695 4953830
chr_2 g4784 g4784.t4 exon g4784.t4.exon3 4953889 4954063
chr_2 g4784 g4784.t4 cds g4784.t4.CDS3 4953889 4954062
chr_2 g4784 g4784.t4 TSS g4784.t4 NA NA

Sequences

>g4784.t4 Gene=g4784 Length=772
AATGATGGAAAACAGAAAACCTTTTAAATTAAGAGGAATAATCATTGCATACAACTTTTT
CCAAGTGCTATTCTCCTTTTACTTATTCTGGGAAGCTGGAGTAACTGGCTGGTTTGGAAA
TTACAATTTCAGATGCCAAACAGTTGATTTCTCATTAGAAGGAATGGCATTGAGGACTGC
TCAAGGATGTTGGTGGTATTATTTCAGTAAATTCACAGAATTTTTCGATACATTCTTCTT
CGTTTTGAGAAAAAGATATGATCAAGTTTCTACATTGCACGTCATTCATCATGGTCTCAT
GCCATTCAGTGTTTGGTGGGGAGTGAAGTTTATGGCTGGTGGTCATAGCACATTTTTCGG
TTTCCTTAATACATTTGTTCATATTGTGATGTATACTTATTACATGTTGGCTGCAATTGG
ACCAGAAATGCAGAAATATCTCTGGTGGAAAAAATATTTAACAATTTTGCAAATGATTCA
ATTTATTGCAATTTTTGTTCACGCTCTTCAACTTTTCTTTCATAATCCATGCAATTATCC
AATTGTTTTTGCCTATTGGATTGCAGCTCATGGTGTTTTGTTCTTATTCCTCTTTTCAAA
TTTTTACAAAAAAGCTTACACAGTGAAAACCAACAAGAAGAAAAAGATCGAAGACATTAA
TGGAAATATTATGACTAAAATTGGGAATGAAATTATTACAAATAAATCAATTGAAAATGC
TGAGAACTATTCAAGAACTAGAATAGTTTCGAATGGAATTTCATCACATTAA

>g4784.t4 Gene=g4784 Length=256
MMENRKPFKLRGIIIAYNFFQVLFSFYLFWEAGVTGWFGNYNFRCQTVDFSLEGMALRTA
QGCWWYYFSKFTEFFDTFFFVLRKRYDQVSTLHVIHHGLMPFSVWWGVKFMAGGHSTFFG
FLNTFVHIVMYTYYMLAAIGPEMQKYLWWKKYLTILQMIQFIAIFVHALQLFFHNPCNYP
IVFAYWIAAHGVLFLFLFSNFYKKAYTVKTNKKKKIEDINGNIMTKIGNEIITNKSIENA
ENYSRTRIVSNGISSH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g4784.t4 PANTHER PTHR11157 FATTY ACID ACYL TRANSFERASE-RELATED 1 223 7.6E-120
3 g4784.t4 PANTHER PTHR11157:SF151 ELONGATION OF VERY LONG CHAIN FATTY ACIDS PROTEIN 1 223 7.6E-120
1 g4784.t4 Pfam PF01151 GNS1/SUR4 family 1 214 5.4E-56
10 g4784.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
18 g4784.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 30 -
14 g4784.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 31 63 -
21 g4784.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 64 82 -
12 g4784.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 83 93 -
20 g4784.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 94 112 -
15 g4784.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 113 117 -
22 g4784.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 118 140 -
13 g4784.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 141 151 -
17 g4784.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 152 173 -
16 g4784.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 174 178 -
19 g4784.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 179 202 -
11 g4784.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 203 256 -
7 g4784.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 12 34 -
6 g4784.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 64 82 -
9 g4784.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 89 108 -
8 g4784.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 118 140 -
5 g4784.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 152 174 -
4 g4784.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 179 201 -

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