Gene loci information

Transcript annotation

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

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.t4 TSS g3679.t4 27372638 27372638
chr_3 g3679 g3679.t4 isoform g3679.t4 27372746 27381048
chr_3 g3679 g3679.t4 exon g3679.t4.exon1 27372746 27373153
chr_3 g3679 g3679.t4 exon g3679.t4.exon2 27378027 27378261
chr_3 g3679 g3679.t4 exon g3679.t4.exon3 27378330 27378524
chr_3 g3679 g3679.t4 exon g3679.t4.exon4 27378591 27378671
chr_3 g3679 g3679.t4 cds g3679.t4.CDS1 27378594 27378671
chr_3 g3679 g3679.t4 exon g3679.t4.exon5 27379013 27379312
chr_3 g3679 g3679.t4 cds g3679.t4.CDS2 27379013 27379312
chr_3 g3679 g3679.t4 exon g3679.t4.exon6 27379402 27379533
chr_3 g3679 g3679.t4 cds g3679.t4.CDS3 27379402 27379533
chr_3 g3679 g3679.t4 exon g3679.t4.exon7 27379600 27381048
chr_3 g3679 g3679.t4 cds g3679.t4.CDS4 27379600 27379743
chr_3 g3679 g3679.t4 TTS g3679.t4 27381047 27381047

Sequences

>g3679.t4 Gene=g3679 Length=2800
AAAATAATATTTTAAAAAATATTGCTGCTTATGCAATAAACTACTCAAACTAATATTTTA
TAAAAAAGACAGAGATAATAATAGAAGAAAAATTTAATTTCTGACTTGTACATCAGAGTA
AGAGTAGAAAAAGAAGTAACAAACATAAAGGAGAGATAAGTTCAGTGTAATAAGTAATAA
TAATTAATTTATTGAAACATCTTGGTACATACACAAGAATAAAGTAAAGTTGAATTGTGC
AAAGTAGTGATAAAAAGAAAGAAGAAAAGTGAAAGGACAGTAAGAAGCAAGTTTTGTTGT
ATGCTGCAGTTGGTTAAAGAGTAAATTTTCCTCGCAATCAAGGACATTTCAAAAAAAAAA
GAATTACCTCAAAGCGTTACTCTTATTTCACCTCAAGGACTTTGAAAGATTAACTTCAAC
CATCGTTGAGTGTGGACTTGTAAAATAAAAAAAGGATCATCGTGCATGTGTGTTCATATT
CAACGACTGTTGCATATCTTCATAGATAAATAAAATAAGAACAAAATTTACAAATAAGCA
GATTCAAAGGATAATACATAAATAAATAAAAAAAGAAAAATGGATAATAGTACAACGAGC
GCTATAGCAAAATATTGGGACTATTTGTTTGTTAAGTTGGCAGATGAGCGAACAAATGAA
TGGCCATTGATTAAATCACCGTTCCCAGGTCTCACAATTATTGCACTTTATCTATACTTC
GTAAATGTGGCTGGACCACGATTTATGAAGGATCGTAAACCTTTTCAAATGAAGAAAACC
TTAATTGTGTATAATTTCCTGCAAGTACTTGTCAGTGTATATCTTTTCGTAGAGGTTAGG
CATGAATGGTGGATGGCTTAGACACTACTCTTGGAGATGTCAACCTGTAGACACATCCAG
AAGTGAATTTGGAATGAGAGAAGCACGCGGCTGCTATGTATATTTCATTGCCAAACTTAC
TGAACTCTTGGACACAATTTTCTTTGTACTTCGAAAAAAAGATAATCAGGTGTCTTTTCT
GCATCTGTATCATCACACAGTAATGCCCATGATTTCATGGGGTTGTACTAAGTATTTCCC
TGGCGGCCATGGTACTTTTATCGGCGTAATTAACTCTTTTGTTCATATTGTTATGTACTT
TTACTATATGATGGCTGCTATGGGACCTGAATTCCATAAATATTTATGGTGGAAACATTG
GATCACTAACTTACAAATGATTCAATTCGGTATGGCTTTCTTGCACTCTGCTCAATTATT
ATACACAGATTGCGGTTATCCACGCTGGTCTGTCTGCTTCACACTGCCAAATGCTATCTT
TTTCTACATGCTCTTTAACGATTTTTACAAGAAATCATATACGAAGAAAGGTAAGGGAAA
GAAGGTTGCAAATGGAAAAATTAAGCAAGCAAATGGCAAAACAAACGGTCACATTGTACA
TGATATCAATCACAACGAAACAAAGCCTGATGAGGATAAAAGAAAAAGTGAATAGAATTC
AAGTTTCAATATAAAGAAGAACAAAATATTTCATATGAGATGATTACTGTTTAATAAATA
GTAACACAAAGTTTTCTTGCTTTATTTGAAAATGATTTATATTTACTACATGTAGTGTTA
AAGTACCGACTCTTTTTCAAAATCTAAAGAAAATTTTTTAGGAAGAATTCTAAAAATCTT
ATCTATCTACCTGCATATATACTCCTCTACTTATTTTTAATAAACTATAGTAAAATAAGA
ATTGAAAATTTGTTCTTCAGTGCTATTGAACGCGTGTGATTACTATTAATCATGAAAAAA
CTTTCTACCCTAAGTGACTAAAATAGTAATTTAAATGATATTCTGTTGTGTGTATTTGTT
TTGAATGTGCAATAAACTTTCATCAATCAACTAATTATTTATTATATCAAATTTAAAATG
ATAACTTTTATAAGTTCAATTATCATTCTTCAATTTTATTTAATAGAAAATTTTTCTTAA
AAGTTTAAAGTGCAAATCGATTTCTTGTTTTCGCCGACTTGTTTTACCAGAATTTTTTAA
AAGTTTAGATTTCTTTCTTACCGTAATATGTTTGTATCTGTTCTTGATTATAAACATACA
TATTGTATTATCATATTTAGTATCTTTCAAAAAGAATGCCTTTAAGATTAAACTTTTACT
TAAAAATTTGTTCAACAAATAAACTATCGATGAATAAGACAATTTTCTGACATTTCTCAG
AGAATAAGAAATAAAACTTTTTAAAAAATGAAAGAAAAACAATCTTTTTTCTAAGTCAAC
ACTATGTTTATCATATTATAGATGCAAATATCAGAATATTTGAAACACATAAACTCTCTT
TTTCGTTTAAATAAAAAATAAAATACAAGTTTTATGTTTTCAATAATTTAAGATTGGTAT
ATAGTATTTGTTTAATCGTGATGTCATCAATTGATGTTTTCATTTCATAGATCAGAAGTT
TCAGAAAATCAACTTATATGAGTTCTTGTCTAACCCAAAAGAGAATTCATTAAAAATTTA
TTTAAGATGTGATAATGAAATGTGCTAAAAAAACTCTATGTCATTAAACGATTGCAATAA
ACACTATAACTAAATAAGTAGTCGTGTTTACTTACTGAAGAATGATCTTTCAATTCAACA
TCAATACTTCCTTTTCATTCATTTTTTTTGTATGTATTCTTTCAACTCCTTACTCCAATA
TATTATTTTAATTGATTAAGACTTGATGTATGAACAAATATTTTTTTGTATATGAGAAAG
AAAATGTATGAGAAATAAAATATTTGTATATGTAAAACAA

>g3679.t4 Gene=g3679 Length=217
MNGGWLRHYSWRCQPVDTSRSEFGMREARGCYVYFIAKLTELLDTIFFVLRKKDNQVSFL
HLYHHTVMPMISWGCTKYFPGGHGTFIGVINSFVHIVMYFYYMMAAMGPEFHKYLWWKHW
ITNLQMIQFGMAFLHSAQLLYTDCGYPRWSVCFTLPNAIFFYMLFNDFYKKSYTKKGKGK
KVANGKIKQANGKTNGHIVHDINHNETKPDEDKRKSE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g3679.t4 MobiDBLite mobidb-lite consensus disorder prediction 198 217 -
7 g3679.t4 MobiDBLite mobidb-lite consensus disorder prediction 199 217 -
2 g3679.t4 PANTHER PTHR11157 FATTY ACID ACYL TRANSFERASE-RELATED 2 181 1.8E-104
3 g3679.t4 PANTHER PTHR11157:SF153 ELONGATION OF VERY LONG CHAIN FATTY ACIDS PROTEIN 2 181 1.8E-104
1 g3679.t4 Pfam PF01151 GNS1/SUR4 family 8 180 1.1E-48
12 g3679.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 31 -
17 g3679.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 32 50 -
9 g3679.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 51 61 -
15 g3679.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 62 79 -
13 g3679.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 80 84 -
14 g3679.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 85 102 -
10 g3679.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 103 113 -
18 g3679.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 114 134 -
11 g3679.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 135 145 -
16 g3679.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 146 165 -
8 g3679.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 166 217 -
4 g3679.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 86 108 -
5 g3679.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 146 165 -

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