Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Putative fatty acid elongation protein 3.

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 g8977 g8977.t5 TTS g8977.t5 34306777 34306777
chr_2 g8977 g8977.t5 isoform g8977.t5 34306953 34308238
chr_2 g8977 g8977.t5 exon g8977.t5.exon1 34306953 34308238
chr_2 g8977 g8977.t5 cds g8977.t5.CDS1 34307691 34308104
chr_2 g8977 g8977.t5 TSS g8977.t5 NA NA

Sequences

>g8977.t5 Gene=g8977 Length=1286
ATGATCGTGTTTGCGGATTTTGGACATGGCTTTTTGTGCTTTCAAAACTGCCTGAGCTTG
GTGATACAATTTTCATTGTACTTCGCAAGCAACCACTCATTTTCTTACACTGGTATCATC
ATATCACAGTTCTTATGTATTCATGGTTCTCATATCAAGAGTATACAGCATCAGCACGGT
GGTTTGTTGTCATGAATTACTGCGTTCATTCACTGATGTACAGCTACTATGCACTTAGAG
CTATGAAATTTAATCCACCAAGATTTATCTCAATGATTATTACGGGTCTGCAATTAACTC
AAATGATCATCGGATGTGCAATCAATATTTGGGCTTATGATTATCTTCAAACAGCTGGTC
ACACTTGCAATATTTCATTGACAAATATTAAATTTTCAATTGCTATGTATGCTAGCTACT
TCATTCTATTTGCACGTTTCTTCCATCTTACATATTTGTCAACTAACGCACGTAAAGGTA
AACGAACAACATCTACAATGGCTTCACAGCAGCCAAGACAATTGGATAATAAGATCAAAG
CTCAATAAATTATTTGTAAAATTAAATGTCCCAAAACAAACAACATCGTAAATGTTATTT
TAACATTCATTAATGAAAGAATGTATGAAAATAATTTTTATCTAAAAATTGTATGTTCAG
TTCAACTACACACAAAAAAAACATAGCATTTCAAATTTTTCCTATTTGGCTCAACAAGTT
TAAAGGAAGAAGTAAAACAAAAATTTAGTCATCGAAACAGTAAAACAACAACACATTCTA
ATTATGATTTTAGTTTTTAAGAAAGAGAGAAAAAGCTTTTGTGCGCTTAAAAAGATAATT
TTTGTGTCAAAAATACTTTTCACATATATATTTTAATTCTAGTTCATTCTATTCTATTTG
TTCTTTTATTTTCTTTTATTCATTTAAAGAAGTTTTTGCTATGTACTATAAAAAAGTCCA
AACATCTTAAAAGAAACCTACAAAATGATTGTAAAAAGTTGAATGCAGTGTAAAGAAAAG
GAAATGCAAATATGAAGAATGACATAAAACATAAGATACCAAAGAAAGATTTTTTCGACA
AAGGATTGAAATTGACCCGCAAGATATGTGCACTGCATTCAGCTTTTATTGTATAGTTTG
TTGAATAGAGTGTTTGCAAAAATGAAGAAGAAATATACAATTTCACACACAATTGTATTA
AGAGGCATTTACATACATATTAAAATTGTTCTTTCTTTATTCCTCAATTCAGAACTTTTT
ATAAATAGATAGGTAGGACATATATA

>g8977.t5 Gene=g8977 Length=137
MYSWFSYQEYTASARWFVVMNYCVHSLMYSYYALRAMKFNPPRFISMIITGLQLTQMIIG
CAINIWAYDYLQTAGHTCNISLTNIKFSIAMYASYFILFARFFHLTYLSTNARKGKRTTS
TMASQQPRQLDNKIKAQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g8977.t5 MobiDBLite mobidb-lite consensus disorder prediction 118 137 -
2 g8977.t5 PANTHER PTHR11157 FATTY ACID ACYL TRANSFERASE-RELATED 1 116 3.0E-35
3 g8977.t5 PANTHER PTHR11157:SF17 ELONGATION OF VERY LONG CHAIN FATTY ACIDS PROTEIN 1 116 3.0E-35
1 g8977.t5 Pfam PF01151 GNS1/SUR4 family 1 113 1.5E-25
10 g8977.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
13 g8977.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 32 -
8 g8977.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 33 43 -
12 g8977.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 44 67 -
11 g8977.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 68 86 -
14 g8977.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 87 108 -
9 g8977.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 109 137 -
6 g8977.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 10 32 -
5 g8977.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 45 67 -
4 g8977.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 87 109 -

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