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.t11 TSS g3679.t11 27378040 27378040
chr_3 g3679 g3679.t11 isoform g3679.t11 27378198 27379743
chr_3 g3679 g3679.t11 exon g3679.t11.exon1 27378198 27378261
chr_3 g3679 g3679.t11 cds g3679.t11.CDS1 27378198 27378261
chr_3 g3679 g3679.t11 exon g3679.t11.exon2 27378330 27378514
chr_3 g3679 g3679.t11 cds g3679.t11.CDS2 27378330 27378514
chr_3 g3679 g3679.t11 exon g3679.t11.exon3 27378591 27378671
chr_3 g3679 g3679.t11 cds g3679.t11.CDS3 27378591 27378671
chr_3 g3679 g3679.t11 exon g3679.t11.exon4 27379013 27379317
chr_3 g3679 g3679.t11 cds g3679.t11.CDS4 27379013 27379317
chr_3 g3679 g3679.t11 exon g3679.t11.exon5 27379402 27379533
chr_3 g3679 g3679.t11 cds g3679.t11.CDS5 27379402 27379533
chr_3 g3679 g3679.t11 exon g3679.t11.exon6 27379600 27379743
chr_3 g3679 g3679.t11 cds g3679.t11.CDS6 27379600 27379741
chr_3 g3679 g3679.t11 TTS g3679.t11 27380148 27380148

Sequences

>g3679.t11 Gene=g3679 Length=911
ATGGATAATAGTACAACGAGCGCTATAGCAAAATATTGGGACTATTTGTTTGTTAAGTTG
GCAGATGAGCGAACAAATGAATGGCCATTGATTAAATCACCGTTCCCAGGTCTCACAATT
ATTGCACTTTATCTATACTTCGTAAATGTGGCTGGACCACGATTTATGAAGGATCGTAAA
CCTTTTCAAATGAAGAAAACCTTAATTGTGTATAATTTCCTGCAAGTACTTGTCAGTGTA
TATCTTTTCGGCATGAATGGTGGATGGCTTAGACACTACTCTTGGAGATGTCAACCTGTA
GACACATCCAGAAGTGAATTTGGAATGAGAGAAGCACGCGGCTGCTATGTATATTTCATT
GCCAAACTTACTGAACTCTTGGACACAATTTTCTTTGTACTTCGAAAAAAAGATAATCAG
GTGTCTTTTCTGCATCTGTATCATCACACAGTAATGCCCATGATTTCATGGGGTTGTACT
AAGTATTTCCCTGGCGGCCATGGTACTTTTATCGGCGTAATTAACTCTTTTGTTCATATT
GTTATGTACTTTTACTATATGATGGCTGCTATGGGACCTGAATTCCATAAATATTTATGG
TGGAAACATTGGATCACTAACTTACAAATGGTAAAATTCAATTCGGTATGGCTTTCTTGC
ACTCTGCTCAATTATTATACACAGATTGCGGTTATCCACGCTGGTCTGTCTGCTTCACAC
TGCCAAATGCTATCTTTTTCTACATGCTCTTTAACGATTTTTACAAGAAATCATATACGA
AGAAAGGTAAGGGAAAGAAGGTTGCAAATGGAAAAATTAAGCAAGCAAATGGCAAAACAA
ACGGTCACATTGTACATGATATCAATCACAACGAAACAAAGCCTGATGAGGATAAAAGAA
AAAGTGAATAG

>g3679.t11 Gene=g3679 Length=303
MDNSTTSAIAKYWDYLFVKLADERTNEWPLIKSPFPGLTIIALYLYFVNVAGPRFMKDRK
PFQMKKTLIVYNFLQVLVSVYLFGMNGGWLRHYSWRCQPVDTSRSEFGMREARGCYVYFI
AKLTELLDTIFFVLRKKDNQVSFLHLYHHTVMPMISWGCTKYFPGGHGTFIGVINSFVHI
VMYFYYMMAAMGPEFHKYLWWKHWITNLQMVKFNSVWLSCTLLNYYTQIAVIHAGLSASH
CQMLSFSTCSLTIFTRNHIRRKVRERRLQMEKLSKQMAKQTVTLYMISITTKQSLMRIKE
KVN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g3679.t11 PANTHER PTHR11157 FATTY ACID ACYL TRANSFERASE-RELATED 8 226 5.0E-110
3 g3679.t11 PANTHER PTHR11157:SF153 ELONGATION OF VERY LONG CHAIN FATTY ACIDS PROTEIN 8 226 5.0E-110
1 g3679.t11 Pfam PF01151 GNS1/SUR4 family 30 264 2.8E-52
12 g3679.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 34 -
14 g3679.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 35 56 -
10 g3679.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 57 67 -
18 g3679.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 68 85 -
11 g3679.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 86 115 -
16 g3679.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 116 134 -
8 g3679.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 135 145 -
15 g3679.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 146 163 -
13 g3679.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 164 168 -
17 g3679.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 169 188 -
9 g3679.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 189 303 -
7 g3679.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 34 56 -
4 g3679.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 68 90 -
6 g3679.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 170 192 -
5 g3679.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 213 235 -

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