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.t5 TTS g4784.t5 4952994 4952994
chr_2 g4784 g4784.t5 isoform g4784.t5 4953170 4959330
chr_2 g4784 g4784.t5 exon g4784.t5.exon1 4953170 4953630
chr_2 g4784 g4784.t5 cds g4784.t5.CDS1 4953170 4953630
chr_2 g4784 g4784.t5 exon g4784.t5.exon2 4953695 4953830
chr_2 g4784 g4784.t5 cds g4784.t5.CDS2 4953695 4953830
chr_2 g4784 g4784.t5 exon g4784.t5.exon3 4953889 4954077
chr_2 g4784 g4784.t5 cds g4784.t5.CDS3 4953889 4954077
chr_2 g4784 g4784.t5 exon g4784.t5.exon4 4954444 4954591
chr_2 g4784 g4784.t5 cds g4784.t5.CDS4 4954444 4954584
chr_2 g4784 g4784.t5 exon g4784.t5.exon5 4959215 4959330
chr_2 g4784 g4784.t5 TSS g4784.t5 4959382 4959382

Sequences

>g4784.t5 Gene=g4784 Length=1050
TATCACATGAAAATTTTATAATTTTAAGTTGTTGAGACAAAGTTAAGACAAGAACAAGTA
AAATTGTTTTACTAAAATTTTCAATTAGTGTCTTGTGGTGAATTTAATTATAAACGAATA
AAAATGGAGATTTTTAACAAAATCAATGCAGGATGGCGTGATTTGATGGATAATAAATCA
GATCCTAGAGTAGCTAATTGGCCTCTAATGTCATCACCACTGCCAACAATAATTATTTGC
TTGTCATATGTCTATATCGTTAAGGTTTTGGGTCCGAAAATGATGGAAAACAGAAAACCT
TTTAAATTAAGAGGAATAATCATTGCATACAACTTTTTCCAAGTGCTATTCTCCTTTTAC
TTATTCTGGGAAGCTGGAGTAACTGGCTGGTTTGGAAATTACAATTTCAGATGCCAAACA
GTTGATTTCTCATTAGAAGGAATGGCATTGAGGACTGCTCAAGGATGTTGGTGGTATTAT
TTCAGTAAATTCACAGAATTTTTCGATACATTCTTCTTCGTTTTGAGAAAAAGATATGAT
CAAGTTTCTACATTGCACGTCATTCATCATGGTCTCATGCCATTCAGTGTTTGGTGGGGA
GTGAAGTTTATGGCTGGTGGTCATAGCACATTTTTCGGTTTCCTTAATACATTTGTTCAT
ATTGTGATGTATACTTATTACATGTTGGCTGCAATTGGACCAGAAATGCAGAAATATCTC
TGGTGGAAAAAATATTTAACAATTTTGCAAATGATTCAATTTATTGCAATTTTTGTTCAC
GCTCTTCAACTTTTCTTTCATAATCCATGCAATTATCCAATTGTTTTTGCCTATTGGATT
GCAGCTCATGGTGTTTTGTTCTTATTCCTCTTTTCAAATTTTTACAAAAAAGCTTACACA
GTGAAAACCAACAAGAAGAAAAAGATCGAAGACATTAATGGAAATATTATGACTAAAATT
GGGAATGAAATTATTACAAATAAATCAATTGAAAATGCTGAGAACTATTCAAGAACTAGA
ATAGTTTCGAATGGAATTTCATCACATTAA

>g4784.t5 Gene=g4784 Length=308
MEIFNKINAGWRDLMDNKSDPRVANWPLMSSPLPTIIICLSYVYIVKVLGPKMMENRKPF
KLRGIIIAYNFFQVLFSFYLFWEAGVTGWFGNYNFRCQTVDFSLEGMALRTAQGCWWYYF
SKFTEFFDTFFFVLRKRYDQVSTLHVIHHGLMPFSVWWGVKFMAGGHSTFFGFLNTFVHI
VMYTYYMLAAIGPEMQKYLWWKKYLTILQMIQFIAIFVHALQLFFHNPCNYPIVFAYWIA
AHGVLFLFLFSNFYKKAYTVKTNKKKKIEDINGNIMTKIGNEIITNKSIENAENYSRTRI
VSNGISSH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g4784.t5 PANTHER PTHR11157 FATTY ACID ACYL TRANSFERASE-RELATED 5 274 2.4E-149
3 g4784.t5 PANTHER PTHR11157:SF151 ELONGATION OF VERY LONG CHAIN FATTY ACIDS PROTEIN 5 274 2.4E-149
1 g4784.t5 Pfam PF01151 GNS1/SUR4 family 28 266 1.6E-62
16 g4784.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 30 -
24 g4784.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 31 50 -
13 g4784.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 51 61 -
21 g4784.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 62 82 -
17 g4784.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 83 115 -
23 g4784.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 116 134 -
12 g4784.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 135 145 -
20 g4784.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 146 164 -
18 g4784.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 165 169 -
25 g4784.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 170 192 -
14 g4784.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 193 203 -
22 g4784.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 204 225 -
15 g4784.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 226 230 -
19 g4784.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 231 254 -
11 g4784.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 255 308 -
5 g4784.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 23 45 -
6 g4784.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 65 87 -
9 g4784.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 116 134 -
4 g4784.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 141 160 -
10 g4784.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 170 192 -
8 g4784.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 204 226 -
7 g4784.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 231 253 -

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