Gene loci information

Transcript annotation

  • This transcript has been annotated as Very long-chain specific acyl-CoA dehydrogenase, mitochondrial.

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 g4322 g4322.t7 TSS g4322.t7 1191585 1191585
chr_2 g4322 g4322.t7 isoform g4322.t7 1191634 1194978
chr_2 g4322 g4322.t7 exon g4322.t7.exon1 1191634 1191701
chr_2 g4322 g4322.t7 cds g4322.t7.CDS1 1191634 1191701
chr_2 g4322 g4322.t7 exon g4322.t7.exon2 1191829 1192066
chr_2 g4322 g4322.t7 cds g4322.t7.CDS2 1191829 1192066
chr_2 g4322 g4322.t7 exon g4322.t7.exon3 1192130 1192178
chr_2 g4322 g4322.t7 cds g4322.t7.CDS3 1192130 1192178
chr_2 g4322 g4322.t7 exon g4322.t7.exon4 1192234 1192367
chr_2 g4322 g4322.t7 cds g4322.t7.CDS4 1192234 1192367
chr_2 g4322 g4322.t7 exon g4322.t7.exon5 1192618 1193026
chr_2 g4322 g4322.t7 cds g4322.t7.CDS5 1192618 1193026
chr_2 g4322 g4322.t7 exon g4322.t7.exon6 1193922 1194014
chr_2 g4322 g4322.t7 cds g4322.t7.CDS6 1193922 1193959
chr_2 g4322 g4322.t7 exon g4322.t7.exon7 1194962 1194978
chr_2 g4322 g4322.t7 TTS g4322.t7 NA NA

Sequences

>g4322.t7 Gene=g4322 Length=1008
ATGTTTCGTGCAATTAATAAAGTCGCAAAAAATTCAAAAGCTCTTAAAAATCAGACAGAA
GTTATTAGATGTTTGTCTGCACAGCCACAAACAAAGTCAAAGCAAACACCAAGAGCTGAA
AAAGCTGCAAAACCTAATTTATCATTCGTTCATAATCTCTTCCGTGGACAAGTTGAGAGT
TCACAAGTTTTTCCATATCCAATTGCACTCAATCAAGAACAAATTGAATATGTTGGGGCC
TTTGTTGATCCAGTTTCAAAATTCTTTTCTGAAGTCAATAATGCTGATCGTAATGACATG
AATGCTCAAGTTGATGAAGAAACTTTGAAACATCTCTGGGAACTTGGAGCATTTGGTCTA
CAAGTACCACAAGAACTTGGTGGATTAGAATTGAACAATACACAATATGGTAGACTAGCA
GAAATCATTGGTATGAATGATTTAGGTCTTGGTATTGTTATAGGAGCCCATCAGTCCATC
GGTTTTAAGGGAATTCTTCTTTATGGTACAAAAGAGCAAAAAGAGAAATATTTACCAAAG
GTATCATCAGGTGGTGTTTATGCTGCATTTGCATTGACAGAACCATCATCTGGTAGTGAT
GCAGCATCAATTAAATGTCGTGCAGTAAAATCAGCTGATGGCAAACATTACATTTTGAAT
GGTTCAAAAATTTGGATTTCAAATGGTGGCATTGCTGATATTATGACAGTTTTTGCTCAA
ACAGAAGTTCTCGATGAAGCAACAGGACAAAAGAAAGACAAAGTAACAGCTTTTATTGTT
GAACGTGGATTTGGTGGTGTTTCAAATGGTCCACCAGAAAAGAAAATGGGAATCAAATGT
TCAAATACAGCTGAAGTTTACTTTGAAGATGTAAAAATTCCAGTTGAAAATGTTTTAGTG
CTGAATTTAATGAAAATTACAAAAGAATGTCAGTAATATCCAAAAAACTTTGTGAAGCTC
ACGATATTGTTCATAATAATCCTATTGGAGTAGCAATGATGATTTATA

>g4322.t7 Gene=g4322 Length=311
MFRAINKVAKNSKALKNQTEVIRCLSAQPQTKSKQTPRAEKAAKPNLSFVHNLFRGQVES
SQVFPYPIALNQEQIEYVGAFVDPVSKFFSEVNNADRNDMNAQVDEETLKHLWELGAFGL
QVPQELGGLELNNTQYGRLAEIIGMNDLGLGIVIGAHQSIGFKGILLYGTKEQKEKYLPK
VSSGGVYAAFALTEPSSGSDAASIKCRAVKSADGKHYILNGSKIWISNGGIADIMTVFAQ
TEVLDEATGQKKDKVTAFIVERGFGGVSNGPPEKKMGIKCSNTAEVYFEDVKIPVENVLV
LNLMKITKECQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g4322.t7 Gene3D G3DSA:1.10.540.10 - 67 186 1.2E-28
8 g4322.t7 Gene3D G3DSA:2.40.110.10 - 188 300 3.2E-39
3 g4322.t7 PANTHER PTHR43884:SF11 VERY LONG-CHAIN SPECIFIC ACYL-COA DEHYDROGENASE, MITOCHONDRIAL 26 299 4.8E-140
4 g4322.t7 PANTHER PTHR43884 ACYL-COA DEHYDROGENASE 26 299 4.8E-140
2 g4322.t7 Pfam PF02771 Acyl-CoA dehydrogenase, N-terminal domain 80 184 2.7E-22
1 g4322.t7 Pfam PF02770 Acyl-CoA dehydrogenase, middle domain 189 291 9.3E-26
6 g4322.t7 ProSitePatterns PS00072 Acyl-CoA dehydrogenases signature 1. 191 203 -
5 g4322.t7 SUPERFAMILY SSF56645 Acyl-CoA dehydrogenase NM domain-like 64 299 2.36E-64

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:0016627 oxidoreductase activity, acting on the CH-CH group of donors MF
GO:0050660 flavin adenine dinucleotide binding MF
GO:0003995 acyl-CoA dehydrogenase activity MF
GO:0055114 NA NA

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.

Raw TPM values