Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Elongation of very long chain fatty acids protein 4.

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_4 g15914 g15914.t2 TSS g15914.t2 7397828 7397828
chr_4 g15914 g15914.t2 isoform g15914.t2 7397850 7399511
chr_4 g15914 g15914.t2 exon g15914.t2.exon1 7397850 7398233
chr_4 g15914 g15914.t2 exon g15914.t2.exon2 7398548 7398719
chr_4 g15914 g15914.t2 cds g15914.t2.CDS1 7398560 7398719
chr_4 g15914 g15914.t2 exon g15914.t2.exon3 7399077 7399204
chr_4 g15914 g15914.t2 cds g15914.t2.CDS2 7399077 7399204
chr_4 g15914 g15914.t2 exon g15914.t2.exon4 7399261 7399368
chr_4 g15914 g15914.t2 cds g15914.t2.CDS3 7399261 7399368
chr_4 g15914 g15914.t2 exon g15914.t2.exon5 7399440 7399511
chr_4 g15914 g15914.t2 cds g15914.t2.CDS4 7399440 7399511
chr_4 g15914 g15914.t2 TTS g15914.t2 7399596 7399596

Sequences

>g15914.t2 Gene=g15914 Length=864
ATGACCAGTTTAATAAAAAATATTCAAGTTTATTTTAATTACTTAGAATCACTTAGTGAT
CCACGTTCAAAAGGATGGTTTATGGTTGATTCAGTAGTGCCAGCACTTTCGTGCTTCATA
ATTTACATTTTAATTGTTTTCATTGGACCAAAAATTATGAGAAAGTAAATTTGAAACAAA
TTTTAATTTTTTAAAGACTAAATTTTTTTTTCTTTTTTAAGTCGAAAACCTTTCAAGCTC
AATAACTTATTGATATTTTATAACTTTTTTCTGGTTGCTTTAAATCTTTACATCACATTA
AAAATTTTAACTTCAGCTTATAAGTTGAATTATAAATTTTTTTGTCAACCATATCAAAGG
ATTATATCAGAAAATGACATACAGATTGTCAAAGCAATGTGGCTTCTTTATATGTCAAAA
ATTATTGAACTCAATGATACATTTTTCTTTATATTAAGAAAAAAAGATAGTCAATTATCA
TTTTTACATATTTATCACCATTCATTGATTGTTCTTGCTTTTTGGTTTGGGGTTAAATGG
ATACCAAGTGGAAGTGTTACATTAGGTTCAGCTGCAAATGCATTCGTTCATGTCGTCATG
TATTTTTACTATGGATTATCAGCCATTGGAGTAGAGACAAAGAGAATTCTCTGGCTAAAA
AAATCTGTTACAATTATACAACTGATCCAGTTCACTGCTTTTATTTTATTTATGATAAAT
GGATTTACTTTAAAATGTGAATTTCCTTTATGGATAATTTACATTCTTTTACCAAATTGC
TTACTTTTTATTATACTTTTTGGACAATTTTATTTAAAAACATACACAAAAGATGACAAA
AATTGCAAAAAGAAAATAAACTAA

>g15914.t2 Gene=g15914 Length=155
MWLLYMSKIIELNDTFFFILRKKDSQLSFLHIYHHSLIVLAFWFGVKWIPSGSVTLGSAA
NAFVHVVMYFYYGLSAIGVETKRILWLKKSVTIIQLIQFTAFILFMINGFTLKCEFPLWI
IYILLPNCLLFIILFGQFYLKTYTKDDKNCKKKIN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g15914.t2 PANTHER PTHR11157 FATTY ACID ACYL TRANSFERASE-RELATED 1 152 2.5E-45
3 g15914.t2 PANTHER PTHR11157:SF12 ELONGATION OF VERY LONG CHAIN FATTY ACIDS PROTEIN 4 1 152 2.5E-45
1 g15914.t2 Pfam PF01151 GNS1/SUR4 family 2 148 3.4E-41
9 g15914.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 26 -
16 g15914.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 27 46 -
11 g15914.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 47 57 -
15 g15914.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 58 79 -
8 g15914.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 80 90 -
13 g15914.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 91 110 -
12 g15914.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 111 115 -
14 g15914.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 116 140 -
10 g15914.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 141 155 -
6 g15914.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 27 46 -
5 g15914.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 56 78 -
4 g15914.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 90 112 -
7 g15914.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 118 140 -

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