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.t8 isoform g4322.t8 1192623 1193704
chr_2 g4322 g4322.t8 exon g4322.t8.exon1 1192623 1193704
chr_2 g4322 g4322.t8 cds g4322.t8.CDS1 1192831 1193703
chr_2 g4322 g4322.t8 TTS g4322.t8 1194175 1194175
chr_2 g4322 g4322.t8 TSS g4322.t8 NA NA

Sequences

>g4322.t8 Gene=g4322 Length=1082
TCTTCTTTATGGTACAAAAGAGCAAAAAGAGAAATATTTACCAAAGGTATCATCAGGTGG
TGTTTATGCTGCATTTGCATTGACAGAACCATCATCTGGTAGTGATGCAGCATCAATTAA
ATGTCGTGCAGTAAAATCAGCTGATGGCAAACATTACATTTTGAATGGTTCAAAAATTTG
GATTTCAAATGGTGGCATTGCTGATATTATGACAGTTTTTGCTCAAACAGAAGTTCTCGA
TGAAGCAACAGGACAAAAGAAAGACAAAGTAACAGCTTTTATTGTTGAACGTGGATTTGG
TGGTGTTTCAAATGGTCCACCAGAAAAGAAAATGGGAATCAAATGTTCAAATACAGCTGA
AGTTTACTTTGAAGATGTAAAAATTCCAGTTGAAAATGTTTTAGGTAAAGAAGGTGAAGG
ATTTAAAGTTGCCATGAATATTCTCAATAATGGTCGTTTTGGTATGGGAATGACACTTGG
TGGTACAATGCGTTATTGTATTCAAAAAGCAACTGATCATGCAACACAAAGAACTCAATT
TGGTAAGAAATTGGAATCTTATGGTGGCATACAAGAAAAATTAGCAAGAATGTCAGTTTT
GCAATATGTAAATCAATCGATTGCTTACATGATTTCTGGAAATATGGATTTAGGATCAAA
TGATTATCATTTAGAAGCTGCTATTTCAAAAGTCTTCGCATCTGAGGCAGCTTGGTACGT
GTGTGATGAAGCCATTCAAATTTTAGGTGGAATGGGTTTCATGCGAGATACACAGTTAGA
ACGCTTCATGCGTGATTTAAGAATCTTTAGAATTTTCGAGGGAACAAATGACATTTTGCG
ACTTTTTGTTGCATTGACTGGCATTCAATATGCAGGAAGTCACTTGAAAGAAGTTCAAAA
AGCTTTCCAAAATCCAGCAGCTAATTTGGGATTGATTTTCAAAGAAGCATCGAAGCGTGC
AAGTTCATATATTGGTCTAGGTGGTGTAGACATGACTGGTCTTGTTGAGCCATCACTCAA
AAATTCTGCCAAACTTTGTGGTGAAAGTATCGATATGTTTGCACGCACTGTTGAGTCATT
AT

>g4322.t8 Gene=g4322 Length=291
MTVFAQTEVLDEATGQKKDKVTAFIVERGFGGVSNGPPEKKMGIKCSNTAEVYFEDVKIP
VENVLGKEGEGFKVAMNILNNGRFGMGMTLGGTMRYCIQKATDHATQRTQFGKKLESYGG
IQEKLARMSVLQYVNQSIAYMISGNMDLGSNDYHLEAAISKVFASEAAWYVCDEAIQILG
GMGFMRDTQLERFMRDLRIFRIFEGTNDILRLFVALTGIQYAGSHLKEVQKAFQNPAANL
GLIFKEASKRASSYIGLGGVDMTGLVEPSLKNSAKLCGESIDMFARTVESL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g4322.t8 Gene3D G3DSA:2.40.110.10 - 1 75 1.9E-19
8 g4322.t8 Gene3D G3DSA:1.20.140.10 - 76 220 3.5E-48
2 g4322.t8 PANTHER PTHR43884:SF11 VERY LONG-CHAIN SPECIFIC ACYL-COA DEHYDROGENASE, MITOCHONDRIAL 1 261 4.6E-140
3 g4322.t8 PANTHER PTHR43884 ACYL-COA DEHYDROGENASE 1 261 4.6E-140
1 g4322.t8 Pfam PF00441 Acyl-CoA dehydrogenase, C-terminal domain 69 215 4.0E-40
6 g4322.t8 ProSitePatterns PS00073 Acyl-CoA dehydrogenases signature 2. 177 196 -
4 g4322.t8 SUPERFAMILY SSF56645 Acyl-CoA dehydrogenase NM domain-like 2 82 6.41E-21
5 g4322.t8 SUPERFAMILY SSF47203 Acyl-CoA dehydrogenase C-terminal domain-like 67 215 2.09E-45

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: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