Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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 g3678 g3678.t2 TTS g3678.t2 27357279 27357279
chr_3 g3678 g3678.t2 isoform g3678.t2 27358171 27363908
chr_3 g3678 g3678.t2 exon g3678.t2.exon1 27358171 27358888
chr_3 g3678 g3678.t2 cds g3678.t2.CDS1 27358697 27358888
chr_3 g3678 g3678.t2 exon g3678.t2.exon2 27359956 27360092
chr_3 g3678 g3678.t2 cds g3678.t2.CDS2 27359956 27360092
chr_3 g3678 g3678.t2 exon g3678.t2.exon3 27360186 27360348
chr_3 g3678 g3678.t2 cds g3678.t2.CDS3 27360186 27360348
chr_3 g3678 g3678.t2 exon g3678.t2.exon4 27361463 27361691
chr_3 g3678 g3678.t2 cds g3678.t2.CDS4 27361463 27361537
chr_3 g3678 g3678.t2 exon g3678.t2.exon5 27361771 27361880
chr_3 g3678 g3678.t2 exon g3678.t2.exon6 27363393 27363908
chr_3 g3678 g3678.t2 TSS g3678.t2 27363908 27363908

Sequences

>g3678.t2 Gene=g3678 Length=1873
AGTTTTCATAGTGCCTTCACGAGATTCGGTCGCACGACATAAAGGAGGAGAAAATTCGAT
TAGAAAATAATTAAAATTTATTAATTTTAATAATCTAAAGTTGCTCACTCAATAAAAATC
AATTTAATAATTGAGAAAAAGAATATTTGTTAAGTTACCGAGTTGCGGAGAATGAAAAAG
CGGAAACATTGATTTCTAGAAAAATTGAATTTATAGAAAAAAATATTTAATTGTCATTGA
ATAAACGTGAAATATAAAATCAAACAAGTAGTTGACAGTAAAAAAAATAGTGGAAATAGA
GGAAATATAATTTTGTGCATATAGGAAAAATATTTTTTTATCTGTGATATATCTTCAAAC
ATATAATAAAAATGAATAATTATACAGACTTTGATGGATTTCATGGATTTCAAAAGAATT
TTGTCAAAATGGCAATTGATGAATACTACTCTCCTCAACAAAACTGGCCAGACTTAGTTT
TAAGATACTGGACTGTTATTGATGAAAGATTAGGAGATAGTAGAGCTAAAAATTATCCAT
TTATCACAACACCATTAGCAACGATAGGATTTGTACTTATATATCTCACATGGGTTTGTG
TTATTGGACCATTTTATATGCGTGATAAAAAACCGTATAACCTTCGTAGTACTCTTATCT
ATTATAATGCTTTTCAAGTTTTCCTTAGTGCTTACATGTTTTATGAGGTACGATATGAAT
CTTTAAATATACTGCTGCAAATATGTTAATTTTTCTCTCTTTTTTTGCTTGAAGCATTTG
ATGGCTGGGTGGATCAAAGGATATAGTTTTACATGTCAAACTGTTGATTATTCTGATAAT
TATCTATCTAGACGAATGATGAATCTTTGTTATGTATATTATTTATCTAAATTGACTGAG
TTTGCGGACACAATTTTCTTTGTGTTACGTAAGAAGAAGTCGCAGATTACTTGGTTGCAT
TTATATCATCACTCATTGACACCATTAGAAGCTTGGATTCTAGTGAGGTTCATTGCCGGT
GGAAATGCAACATTCCCGAATATTTTAAATAACTTTGTACATATTTTAATGTATTTTTAC
TACATGCTTTCTGCAATGGGTCCACAATATCAAAAATATTTGTGGTGGAAGAAGTACATG
ACTGAAATTCAAATAGCACAATTTGTCCTTTGCATCTTCCACAATATTAGAGCTTTGTGC
ACTGGTTGTGCATTTCCACCATTTATGTCATCGCTGCTTCTTATCAACTCTATCATCTTC
TTTATTCTCTTCATGAACTTTTATATTCAAAACTTTTATAAGAGAAAATCAGCTGAACAA
GCAACAGAAAAACACAAAGCTCAGTAAATGATGTGAGAAAAAAGATTCAGTATAAATTTT
AACAGTCTAAATGAGCTTCATTTACAAATAATCATGTATAAACACACAAATTTGCTTTTT
AAGCTTCATATAGAAGATGAAGCAAAGGAAATGATAGTTGGTTTATTGTGAATGAATCTT
CTTCTTCAATTATGTGTAAATAAATTATTTAAATATTATTAAATTAGCGAAATAAAGGTC
AAGAGTAAAAATTATTGTAAAGGCAATAAGTCTGTGAATGGAATTAGGAAATATCGCTAA
ATTATTCACATCATGTGCCAAAATAATGATGATAAAAAAATGCGAATTTTTTCCTCCAGA
ATAGACGTTTAGATAGTGAGATCAAATTAATTTAACTTTAATTTAATTAGATTTTGTATG
TTATTTCGATAAGATACTCAAAAATAAATCCTGTAATTAATTAAAGGCTTCTCACTTTTT
GCAGTGGTCATGTAAATTTCATTTTTACAATATTTATTTATTTTTAAAATAAACAAGCGT
TCAATAGTTAAAA

>g3678.t2 Gene=g3678 Length=188
MAGWIKGYSFTCQTVDYSDNYLSRRMMNLCYVYYLSKLTEFADTIFFVLRKKKSQITWLH
LYHHSLTPLEAWILVRFIAGGNATFPNILNNFVHILMYFYYMLSAMGPQYQKYLWWKKYM
TEIQIAQFVLCIFHNIRALCTGCAFPPFMSSLLLINSIIFFILFMNFYIQNFYKRKSAEQ
ATEKHKAQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g3678.t2 Coils Coil Coil 175 188 -
2 g3678.t2 PANTHER PTHR11157 FATTY ACID ACYL TRANSFERASE-RELATED 1 183 6.9E-104
3 g3678.t2 PANTHER PTHR11157:SF22 ELONGATION OF VERY LONG CHAIN FATTY ACIDS PROTEIN 1 183 6.9E-104
1 g3678.t2 Pfam PF01151 GNS1/SUR4 family 7 179 4.5E-44
10 g3678.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 30 -
17 g3678.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 31 49 -
8 g3678.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 50 60 -
16 g3678.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 61 79 -
11 g3678.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 80 90 -
14 g3678.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 91 107 -
7 g3678.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 108 118 -
13 g3678.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 119 136 -
12 g3678.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 137 147 -
15 g3678.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 148 169 -
9 g3678.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 170 188 -
5 g3678.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 88 110 -
4 g3678.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 147 169 -

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. There were no conditions that were differentially expressed