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.t6 TTS g4784.t6 4952994 4952994
chr_2 g4784 g4784.t6 isoform g4784.t6 4953170 4959330
chr_2 g4784 g4784.t6 exon g4784.t6.exon1 4953170 4953630
chr_2 g4784 g4784.t6 cds g4784.t6.CDS1 4953170 4953630
chr_2 g4784 g4784.t6 exon g4784.t6.exon2 4953698 4953830
chr_2 g4784 g4784.t6 cds g4784.t6.CDS2 4953698 4953830
chr_2 g4784 g4784.t6 exon g4784.t6.exon3 4953889 4954077
chr_2 g4784 g4784.t6 cds g4784.t6.CDS3 4953889 4954077
chr_2 g4784 g4784.t6 exon g4784.t6.exon4 4954444 4954591
chr_2 g4784 g4784.t6 cds g4784.t6.CDS4 4954444 4954584
chr_2 g4784 g4784.t6 exon g4784.t6.exon5 4959215 4959330
chr_2 g4784 g4784.t6 TSS g4784.t6 4959382 4959382

Sequences

>g4784.t6 Gene=g4784 Length=1047
TATCACATGAAAATTTTATAATTTTAAGTTGTTGAGACAAAGTTAAGACAAGAACAAGTA
AAATTGTTTTACTAAAATTTTCAATTAGTGTCTTGTGGTGAATTTAATTATAAACGAATA
AAAATGGAGATTTTTAACAAAATCAATGCAGGATGGCGTGATTTGATGGATAATAAATCA
GATCCTAGAGTAGCTAATTGGCCTCTAATGTCATCACCACTGCCAACAATAATTATTTGC
TTGTCATATGTCTATATCGTTAAGGTTTTGGGTCCGAAAATGATGGAAAACAGAAAACCT
TTTAAATTAAGAGGAATAATCATTGCATACAACTTTTTCCAAGTGCTATTCTCCTTTTAC
TTATTCTGGGAAGCTGGAGTAACTGGCTGGTTTGGAAATTACAATTTCAGATGCCAAACA
GTTGATTTCTCATTAGAAGGAATGGCATTGAGGACTGCTCAAGGATGTTGGTGGTATTAT
TTCAGTAAATTCACAGAATTTTTCGATACATTCTTCTTCGTTTTGAGAAAAAGATATGAT
CAAGTTTCTACATTGCACGTCATTCATCATGGTCTCATGCCATTCATTTGGTGGGGAGTG
AAGTTTATGGCTGGTGGTCATAGCACATTTTTCGGTTTCCTTAATACATTTGTTCATATT
GTGATGTATACTTATTACATGTTGGCTGCAATTGGACCAGAAATGCAGAAATATCTCTGG
TGGAAAAAATATTTAACAATTTTGCAAATGATTCAATTTATTGCAATTTTTGTTCACGCT
CTTCAACTTTTCTTTCATAATCCATGCAATTATCCAATTGTTTTTGCCTATTGGATTGCA
GCTCATGGTGTTTTGTTCTTATTCCTCTTTTCAAATTTTTACAAAAAAGCTTACACAGTG
AAAACCAACAAGAAGAAAAAGATCGAAGACATTAATGGAAATATTATGACTAAAATTGGG
AATGAAATTATTACAAATAAATCAATTGAAAATGCTGAGAACTATTCAAGAACTAGAATA
GTTTCGAATGGAATTTCATCACATTAA

>g4784.t6 Gene=g4784 Length=307
MEIFNKINAGWRDLMDNKSDPRVANWPLMSSPLPTIIICLSYVYIVKVLGPKMMENRKPF
KLRGIIIAYNFFQVLFSFYLFWEAGVTGWFGNYNFRCQTVDFSLEGMALRTAQGCWWYYF
SKFTEFFDTFFFVLRKRYDQVSTLHVIHHGLMPFIWWGVKFMAGGHSTFFGFLNTFVHIV
MYTYYMLAAIGPEMQKYLWWKKYLTILQMIQFIAIFVHALQLFFHNPCNYPIVFAYWIAA
HGVLFLFLFSNFYKKAYTVKTNKKKKIEDINGNIMTKIGNEIITNKSIENAENYSRTRIV
SNGISSH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g4784.t6 PANTHER PTHR11157 FATTY ACID ACYL TRANSFERASE-RELATED 5 273 3.1E-146
3 g4784.t6 PANTHER PTHR11157:SF151 ELONGATION OF VERY LONG CHAIN FATTY ACIDS PROTEIN 5 273 3.1E-146
1 g4784.t6 Pfam PF01151 GNS1/SUR4 family 28 265 6.2E-61
15 g4784.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 30 -
25 g4784.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 31 50 -
14 g4784.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 51 61 -
21 g4784.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 62 82 -
16 g4784.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 83 115 -
24 g4784.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 116 134 -
13 g4784.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 135 145 -
23 g4784.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 146 163 -
18 g4784.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 164 168 -
22 g4784.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 169 191 -
12 g4784.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 192 202 -
20 g4784.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 203 224 -
17 g4784.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 225 229 -
19 g4784.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 230 253 -
11 g4784.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 254 307 -
5 g4784.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 23 45 -
7 g4784.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 65 87 -
8 g4784.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 116 134 -
4 g4784.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 141 159 -
6 g4784.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 169 191 -
10 g4784.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 203 225 -
9 g4784.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 230 252 -

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

Pathway

  • This transcript belongs to the following pathways

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