Gene loci information

Transcript annotation

  • This transcript has been annotated as Elongation of very long chain fatty acids protein 7.

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 g3679 g3679.t5 isoform g3679.t5 27378025 27379309
chr_3 g3679 g3679.t5 exon g3679.t5.exon1 27378025 27378261
chr_3 g3679 g3679.t5 TSS g3679.t5 27378040 27378040
chr_3 g3679 g3679.t5 cds g3679.t5.CDS1 27378198 27378261
chr_3 g3679 g3679.t5 exon g3679.t5.exon2 27378330 27378520
chr_3 g3679 g3679.t5 cds g3679.t5.CDS2 27378330 27378520
chr_3 g3679 g3679.t5 exon g3679.t5.exon3 27378591 27378671
chr_3 g3679 g3679.t5 cds g3679.t5.CDS3 27378591 27378671
chr_3 g3679 g3679.t5 exon g3679.t5.exon4 27379013 27379309
chr_3 g3679 g3679.t5 cds g3679.t5.CDS4 27379013 27379309
chr_3 g3679 g3679.t5 TTS g3679.t5 27380148 27380148

Sequences

>g3679.t5 Gene=g3679 Length=806
AGATTAACTTCAACCATCGTTGAGTGTGGACTTGTAAAATAAAAAAAGGATCATCGTGCA
TGTGTGTTCATATTCAACGACTGTTGCATATCTTCATAGATAAATAAAATAAGAACAAAA
TTTACAAATAAGCAGATTCAAAGGATAATACATAAATAAATAAAAAAAGAAAAATGGATA
ATAGTACAACGAGCGCTATAGCAAAATATTGGGACTATTTGTTTGTTAAGTTGGCAGATG
AGCGAACAAATGAATGGCCATTGATTAAATCACCGTTCCCAGGTCTCACAATTATTGCAC
TTTATCTATACTTCGTAAATGTGGCTGGACCACGATTTATGAAGGATCGTAAACCTTTTC
AAATGAAGAAAACCTTAATTGTGTATAATTTCCTGCAAGTACTTGTCAGTGTATATCTTT
TCGTAGAGGGCATGAATGGTGGATGGCTTAGACACTACTCTTGGAGATGTCAACCTGTAG
ACACATCCAGAAGTGAATTTGGAATGAGAGAAGCACGCGGCTGCTATGTATATTTCATTG
CCAAACTTACTGAACTCTTGGACACAATTTTCTTTGTACTTCGAAAAAAAGATAATCAGG
TGTCTTTTCTGCATCTGTATCATCACACAGTAATGCCCATGATTTCATGGGGTTGTACTA
AGTATTTCCCTGGCGGCCATGGTACTTTTATCGGCGTAATTAACTCTTTTGTTCATATTG
TTATGTACTTTTACTATATGATGGCTGCTATGGGACCTGAATTCCATAAATATTTATGGT
GGAAACATTGGATCACTAACTTACAA

>g3679.t5 Gene=g3679 Length=211
MDNSTTSAIAKYWDYLFVKLADERTNEWPLIKSPFPGLTIIALYLYFVNVAGPRFMKDRK
PFQMKKTLIVYNFLQVLVSVYLFVEGMNGGWLRHYSWRCQPVDTSRSEFGMREARGCYVY
FIAKLTELLDTIFFVLRKKDNQVSFLHLYHHTVMPMISWGCTKYFPGGHGTFIGVINSFV
HIVMYFYYMMAAMGPEFHKYLWWKHWITNLQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g3679.t5 PANTHER PTHR11157 FATTY ACID ACYL TRANSFERASE-RELATED 8 211 2.0E-110
3 g3679.t5 PANTHER PTHR11157:SF153 ELONGATION OF VERY LONG CHAIN FATTY ACIDS PROTEIN 8 211 2.0E-110
1 g3679.t5 Pfam PF01151 GNS1/SUR4 family 30 211 2.3E-52
11 g3679.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 34 -
14 g3679.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 35 56 -
9 g3679.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 57 67 -
13 g3679.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 68 84 -
10 g3679.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 85 117 -
17 g3679.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 118 136 -
8 g3679.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 137 147 -
16 g3679.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 148 165 -
12 g3679.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 166 170 -
15 g3679.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 171 190 -
7 g3679.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 191 211 -
6 g3679.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 34 56 -
5 g3679.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 68 87 -
4 g3679.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 167 189 -

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