Gene loci information

Transcript annotation

  • This transcript has been annotated as Peroxisomal multifunctional enzyme type 2.

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_1 g12123 g12123.t8 TSS g12123.t8 21151265 21151265
chr_1 g12123 g12123.t8 isoform g12123.t8 21151279 21152802
chr_1 g12123 g12123.t8 exon g12123.t8.exon1 21151279 21151566
chr_1 g12123 g12123.t8 cds g12123.t8.CDS1 21151279 21151566
chr_1 g12123 g12123.t8 exon g12123.t8.exon2 21151623 21151872
chr_1 g12123 g12123.t8 cds g12123.t8.CDS2 21151623 21151872
chr_1 g12123 g12123.t8 exon g12123.t8.exon3 21151944 21151985
chr_1 g12123 g12123.t8 cds g12123.t8.CDS3 21151944 21151985
chr_1 g12123 g12123.t8 exon g12123.t8.exon4 21152046 21152605
chr_1 g12123 g12123.t8 cds g12123.t8.CDS4 21152046 21152605
chr_1 g12123 g12123.t8 exon g12123.t8.exon5 21152703 21152802
chr_1 g12123 g12123.t8 cds g12123.t8.CDS5 21152703 21152801
chr_1 g12123 g12123.t8 TTS g12123.t8 NA NA

Sequences

>g12123.t8 Gene=g12123 Length=1240
ATGGTTTTGAGATTTGACAATCGTGTTGTTGTTGTAACTGGTGCAGGTGCTGGTTTAGGT
AGAGAATATGCACTTTTATTTGGCAAGCGTGGTGCTAAAGTGGTTGTGAACGATCTTGGT
GGCAATTTTCATGGTGAAGGAAACTCATCTAGAGCTGCAGACTTGGTTGTAGAAGAAATT
AGAAAACTTGGAGGAACAGCAGTTGCTGATTACAATAGTGTCGTCGAAGGACATAAAATT
ATTGAAACTGCAATTTCAAATTATGGACGCATTGATGTGCTTGTTAATAATGCCGGAATT
CTTCGTGATAAATCAATTGCCAACATCTCGGATAATGACTGGAATTTAATTCATGATGTT
CACTTAAAGGGAAGCTTCATGACAACTCGTGCTGCTTGGCCATACTTTAAAAAACAAAAG
TTCGGTCGTATTATAATGACCACCAGTAATAGTGGAATTTATGGAAATTTCGGTCAAGCT
AACTATTCAGCAGCAAAGCTCGGTTTAATTGGATTAGCTAACACAGTTGCAATTGAAGGT
GCTAAATATAATGTTCATTGTAATACAATTTGTCCAACTGCTGCATCAAGAATGACAAAA
GGTATTTTACCTGATGATCTATTTGATGAAATGAAACCAGAATTGATTGCACCAGTAGTG
GTTTACTTATGTCATGAAGACACAATGGATAATGGTCAAGTCATTGAGAGTGCAGTTGGT
TTTGCAACAAAAGTTCATTTTGTACGAGGCAAGGGAAGTTTAATTCGAGATAGCATCAAA
GATGTTCCAACACCTGAAACTGTTAAGGCGAAATGGGGCAAAATTACTGACATGAAGAAT
GCAAAGCATTTCAATTCAAATATGGAAGTCAGTTCTTCATTTGTCAGCGTTATGGATAGA
TTGAAAAATCCCTTGCCTAAAGATACATTTGAAGATACTTACACTTATACATTCCGTGAC
ACAATTCTATATGCATTGGGAATTGGAGTTGGAACCGAAGATGAAAGCAATTTGAAATTC
ATTTATGAAAATCATCCAAACTTTGCCGCATTCCCAACTTATGCAGTTATTCCTTCTATT
ATTATGCTAATGACATCAAGCATAACACCATCAGCCCTGGAAAACTTTGATCTTTCTCAA
GTCTTGCATGGCGAACAATTTATTGAAATTGTAAATCCTATGAGAACAGAAGGAACACTT
ACAACTCGTGGAAATGTGATTGATGTTCAACAGAAAAAAT

>g12123.t8 Gene=g12123 Length=413
MVLRFDNRVVVVTGAGAGLGREYALLFGKRGAKVVVNDLGGNFHGEGNSSRAADLVVEEI
RKLGGTAVADYNSVVEGHKIIETAISNYGRIDVLVNNAGILRDKSIANISDNDWNLIHDV
HLKGSFMTTRAAWPYFKKQKFGRIIMTTSNSGIYGNFGQANYSAAKLGLIGLANTVAIEG
AKYNVHCNTICPTAASRMTKGILPDDLFDEMKPELIAPVVVYLCHEDTMDNGQVIESAVG
FATKVHFVRGKGSLIRDSIKDVPTPETVKAKWGKITDMKNAKHFNSNMEVSSSFVSVMDR
LKNPLPKDTFEDTYTYTFRDTILYALGIGVGTEDESNLKFIYENHPNFAAFPTYAVIPSI
IMLMTSSITPSALENFDLSQVLHGEQFIEIVNPMRTEGTLTTRGNVIDVQQKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g12123.t8 CDD cd05353 hydroxyacyl-CoA-like_DH_SDR_c-like 3 252 3.37458E-159
12 g12123.t8 Gene3D G3DSA:3.40.50.720 - 2 250 1.4E-72
14 g12123.t8 Gene3D G3DSA:3.30.160.260 - 251 304 2.4E-14
13 g12123.t8 Gene3D G3DSA:3.10.129.10 Hotdog Thioesterase 309 413 2.5E-33
2 g12123.t8 PANTHER PTHR45024 DEHYDROGENASES, SHORT CHAIN 2 303 2.9E-136
5 g12123.t8 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 9 26 5.2E-22
4 g12123.t8 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 89 100 7.9E-8
9 g12123.t8 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 89 100 5.2E-22
7 g12123.t8 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 136 152 5.2E-22
3 g12123.t8 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 162 181 7.9E-8
8 g12123.t8 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 162 181 5.2E-22
6 g12123.t8 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 206 226 5.2E-22
1 g12123.t8 Pfam PF00106 short chain dehydrogenase 9 194 9.2E-40
16 g12123.t8 ProSitePatterns PS00061 Short-chain dehydrogenases/reductases family signature. 149 177 -
17 g12123.t8 SMART SM00822 This enzymatic domain is part of bacterial polyketide synthases and catalyses the first step in the reductive modification of the beta-carbonyl centres in the growing polyketide chain. It uses NADPH to reduce the keto group to a hydroxy group. 8 182 0.0031
10 g12123.t8 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 1 245 1.62E-61
11 g12123.t8 SUPERFAMILY SSF54637 Thioesterase/thiol ester dehydrase-isomerase 311 412 2.11E-26

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:0055114 NA NA
GO:0016491 oxidoreductase activity MF

KEGG

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