Gene loci information

Transcript annotation

  • This transcript has been annotated as Elongation of very long chain fatty acids protein 6.

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.t8 TTS g8977.t8 34306777 34306777
chr_2 g8977 g8977.t8 isoform g8977.t8 34307691 34314115
chr_2 g8977 g8977.t8 exon g8977.t8.exon1 34307691 34308249
chr_2 g8977 g8977.t8 cds g8977.t8.CDS1 34307691 34308249
chr_2 g8977 g8977.t8 exon g8977.t8.exon2 34310749 34310886
chr_2 g8977 g8977.t8 cds g8977.t8.CDS2 34310749 34310886
chr_2 g8977 g8977.t8 exon g8977.t8.exon3 34313832 34314115
chr_2 g8977 g8977.t8 cds g8977.t8.CDS3 34313832 34313878
chr_2 g8977 g8977.t8 TSS g8977.t8 34315042 34315042

Sequences

>g8977.t8 Gene=g8977 Length=981
ATGCAAGTCGATTTAGAATCAATCGGTAAATGGAATTATGACATCAGTGAAGTCAAACCA
AATTATTCCTACATGTTTGACTTTGAGGCTCATTTCACTCATCAAAAAACTCGCCTTTGG
ATGCAAGAAAATTGGACATATGTGTTTTGGTAAGTTTTCATTTTATAATTTTTTTGCACA
ATAAAATTAATTTTTATTCATCACATGTGCCGATCAATTAGGTACTCGGGAATTTACATG
ATCGTAATATTTGCTGGACAACAGTTTATGGCAAATAGACCGAGATTTGAACTAAGAGGA
CTTTTAGTATTGTGGAATTCAATGTTAGCATTATTCAGTATAATTGGTTTTACTCGTACA
GCACCCGAATTAATTCACGTTTTAAAGAACTTCGGACTATTTCATTCTGTTTGTGTTCCT
AGTTATATTTTACATGATCGTGTTTGCGGATTTTGGACATGGCTTTTTGTGCTTTCAAAA
CTGCCTGAGCTTGGTGATACAATTTTCATTGTACTTCGCAAGCAACCACTCATTTTCTTA
CACTGGTATCATCATATCACAGTTCTTATGTATTCATGGTTCTCATATCAAGAGTATACA
GCATCAGCACGGTGGTTTGTTGTCATGAATTACTGCGTTCATTCACTGATGTACAGCTAC
TATGCACTTAGAGCTATGAAATTTAATCCACCAAGATTTATCTCAATGATTATTACGGGT
CTGCAATTAACTCAAATGATCATCGGATGTGCAATCAATATTTGGGCTTATGATTATCTT
CAAACAGCTGGTCACACTTGCAATATTTCATTGACAAATATTAAATTTTCAATTGCTATG
TATGCTAGCTACTTCATTCTATTTGCACGTTTCTTCCATCTTACATATTTGTCAACTAAC
GCACGTAAAGGTAAACGAACAACATCTACAATGGCTTCACAGCAGCCAAGACAATTGGAT
AATAAGATCAAAGCTCAATAA

>g8977.t8 Gene=g8977 Length=247
MIVIFAGQQFMANRPRFELRGLLVLWNSMLALFSIIGFTRTAPELIHVLKNFGLFHSVCV
PSYILHDRVCGFWTWLFVLSKLPELGDTIFIVLRKQPLIFLHWYHHITVLMYSWFSYQEY
TASARWFVVMNYCVHSLMYSYYALRAMKFNPPRFISMIITGLQLTQMIIGCAINIWAYDY
LQTAGHTCNISLTNIKFSIAMYASYFILFARFFHLTYLSTNARKGKRTTSTMASQQPRQL
DNKIKAQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g8977.t8 MobiDBLite mobidb-lite consensus disorder prediction 228 247 -
2 g8977.t8 PANTHER PTHR11157 FATTY ACID ACYL TRANSFERASE-RELATED 1 226 2.8E-86
3 g8977.t8 PANTHER PTHR11157:SF17 ELONGATION OF VERY LONG CHAIN FATTY ACIDS PROTEIN 1 226 2.8E-86
1 g8977.t8 Pfam PF01151 GNS1/SUR4 family 2 223 4.4E-65
11 g8977.t8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 20 -
20 g8977.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 21 42 -
14 g8977.t8 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 43 53 -
22 g8977.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 54 78 -
13 g8977.t8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 79 97 -
21 g8977.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 98 117 -
16 g8977.t8 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 118 122 -
17 g8977.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 123 142 -
10 g8977.t8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 143 153 -
18 g8977.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 154 177 -
15 g8977.t8 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 178 196 -
19 g8977.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 197 218 -
12 g8977.t8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 219 247 -
8 g8977.t8 ProSitePatterns PS01188 ELO family signature. 98 106 -
7 g8977.t8 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 21 43 -
5 g8977.t8 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 121 143 -
6 g8977.t8 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 155 177 -
4 g8977.t8 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 197 219 -

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.

Raw TPM values