Gene loci information

Transcript annotation

  • This transcript has been annotated as 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 g3956 g3956.t4 isoform g3956.t4 29258083 29267122
chr_3 g3956 g3956.t4 exon g3956.t4.exon1 29258083 29258421
chr_3 g3956 g3956.t4 TSS g3956.t4 29258090 29258090
chr_3 g3956 g3956.t4 exon g3956.t4.exon2 29263010 29263073
chr_3 g3956 g3956.t4 exon g3956.t4.exon3 29263536 29263618
chr_3 g3956 g3956.t4 exon g3956.t4.exon4 29263682 29263789
chr_3 g3956 g3956.t4 exon g3956.t4.exon5 29266161 29266217
chr_3 g3956 g3956.t4 cds g3956.t4.CDS1 29266161 29266217
chr_3 g3956 g3956.t4 exon g3956.t4.exon6 29266280 29266358
chr_3 g3956 g3956.t4 cds g3956.t4.CDS2 29266280 29266358
chr_3 g3956 g3956.t4 exon g3956.t4.exon7 29266433 29266596
chr_3 g3956 g3956.t4 cds g3956.t4.CDS3 29266433 29266596
chr_3 g3956 g3956.t4 exon g3956.t4.exon8 29266655 29266807
chr_3 g3956 g3956.t4 cds g3956.t4.CDS4 29266655 29266807
chr_3 g3956 g3956.t4 exon g3956.t4.exon9 29266874 29267122
chr_3 g3956 g3956.t4 cds g3956.t4.CDS5 29266874 29267122
chr_3 g3956 g3956.t4 TTS g3956.t4 29267500 29267500

Sequences

>g3956.t4 Gene=g3956 Length=1296
ATATGCTATGCTCTCGAATTTTGAGTGTGAAGTGTGAAGAGTGAAGGAGAAAAATTGTAA
AAAAAGTTATGAAACACACAGTTGTGTTAAAGCGCTAAAGAGTCTAAAAGTGGTTAGTGT
TGATTAATACTTTGTCATCGAATGCTGATAATAGACAATTCTGAAATAACCAATACCGCG
AAAAGCAAAGATTGAACGCTTGAATTTTTCGCAATAGTGAAAAAATTGTAAAGAGAAAAA
AATTGGATTTTTCCTTAAAATAATCTTATATAAGACTTGCACGGAATTAATCGAGAAAAT
ATACAAATCTATAAGCCGGTGTATAGATAAATTAAATTGATAAAGATGGCCTTAATAATG
AAATATATTGACAGTTTGCACCATTATATGGATAAGTATGGTGATCCTCGCACTAAAGAC
TGGCCCCTTATGTCTTCTCCATTCCATACGCTAGGGATCTGTTTAGGATATGTCTATATT
GTGAAGTACCTAGGTCCGCGTCTTATGGAAAATAGAAAACCATTCCAACTGAAAAATACG
CTAGTTATTTATAATTTAATGCAAGTTATTTTTAGTACGTGGTTATTTTACGAGATGTGC
CACGCATGCTGGTGGTATTATTTCTCAAAATTCACCGAATTTTTTGACACTTTCTTCTTT
GTGCTTCGCAAAAAGACAAGTCAAGTGTCAACACTTCATGTAATACATCATGGAGTTATG
CCAATGTCTGTATGGTTCGGTGTCAAATTCACTCCAGGCGGTCATAGCACATTCTTTGGT
CTTTTGAATACATTCGTGCATATTATCATGTACACTTATTATCTACTCACTGCAATGGGT
CCACAATATCAAAAGTATTTATGGTGGAAAAAATACCTCACTGCCCTTCAAATGGTCCAA
TTTATACTCATTATGGTTCACGCTTTTCAACTTCTATTTGTGGATTGCAATTATCCAAAA
GCTTTCGTTTGGTGGATTGGTATGCATGCAGTCATGTTCTTCTTTTTATTTAAAGAGTTT
TATATTCAATCATACAATGCACGAAAATTCAAAGGGAAAAATCAATCAAATGGTTCAATT
ACAACAAACGATAAAAAGCATGACGGAGATGCAGCAATAATCTTGAATGGTCACTGTAAT
GGCATTTGTAAAAATACTTCACATCAAAACGGCACAATAAAGATGGATGCAACTGGATGC
AATAAAGCATCATCTTATTATGTGAAAAGCGATGATATCACTGCCATTAGAACAACGAAT
CTAACGCAAAGAATAAGAGTCACTTCACCTGAGTAA

>g3956.t4 Gene=g3956 Length=233
MCHACWWYYFSKFTEFFDTFFFVLRKKTSQVSTLHVIHHGVMPMSVWFGVKFTPGGHSTF
FGLLNTFVHIIMYTYYLLTAMGPQYQKYLWWKKYLTALQMVQFILIMVHAFQLLFVDCNY
PKAFVWWIGMHAVMFFFLFKEFYIQSYNARKFKGKNQSNGSITTNDKKHDGDAAIILNGH
CNGICKNTSHQNGTIKMDATGCNKASSYYVKSDDITAIRTTNLTQRIRVTSPE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g3956.t4 PANTHER PTHR11157 FATTY ACID ACYL TRANSFERASE-RELATED 1 173 1.6E-92
3 g3956.t4 PANTHER PTHR11157:SF151 ELONGATION OF VERY LONG CHAIN FATTY ACIDS PROTEIN 1 173 1.6E-92
1 g3956.t4 Pfam PF01151 GNS1/SUR4 family 2 153 4.7E-46
13 g3956.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
18 g3956.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 24 -
10 g3956.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 25 35 -
15 g3956.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 36 54 -
11 g3956.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 55 59 -
17 g3956.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 60 82 -
8 g3956.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 83 93 -
16 g3956.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 94 112 -
12 g3956.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 113 123 -
14 g3956.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 124 143 -
9 g3956.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 144 233 -
7 g3956.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 31 50 -
6 g3956.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 60 82 -
5 g3956.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 94 116 -
4 g3956.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 126 144 -

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