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.t4 TSS g12123.t4 21150894 21150894
chr_1 g12123 g12123.t4 isoform g12123.t4 21150983 21152605
chr_1 g12123 g12123.t4 exon g12123.t4.exon1 21150983 21150989
chr_1 g12123 g12123.t4 exon g12123.t4.exon2 21151266 21151566
chr_1 g12123 g12123.t4 cds g12123.t4.CDS1 21151279 21151566
chr_1 g12123 g12123.t4 exon g12123.t4.exon3 21151623 21151872
chr_1 g12123 g12123.t4 cds g12123.t4.CDS2 21151623 21151872
chr_1 g12123 g12123.t4 exon g12123.t4.exon4 21151944 21151985
chr_1 g12123 g12123.t4 cds g12123.t4.CDS3 21151944 21151985
chr_1 g12123 g12123.t4 exon g12123.t4.exon5 21152046 21152605
chr_1 g12123 g12123.t4 cds g12123.t4.CDS4 21152046 21152605
chr_1 g12123 g12123.t4 TTS g12123.t4 NA NA

Sequences

>g12123.t4 Gene=g12123 Length=1160
ACGAAAGTCCTTCTGCAATCATGGTTTTGAGATTTGACAATCGTGTTGTTGTTGTAACTG
GTGCAGGTGCTGGTTTAGGTAGAGAATATGCACTTTTATTTGGCAAGCGTGGTGCTAAAG
TGGTTGTGAACGATCTTGGTGGCAATTTTCATGGTGAAGGAAACTCATCTAGAGCTGCAG
ACTTGGTTGTAGAAGAAATTAGAAAACTTGGAGGAACAGCAGTTGCTGATTACAATAGTG
TCGTCGAAGGACATAAAATTATTGAAACTGCAATTTCAAATTATGGACGCATTGATGTGC
TTGTTAATAATGCCGGAATTCTTCGTGATAAATCAATTGCCAACATCTCGGATAATGACT
GGAATTTAATTCATGATGTTCACTTAAAGGGAAGCTTCATGACAACTCGTGCTGCTTGGC
CATACTTTAAAAAACAAAAGTTCGGTCGTATTATAATGACCACCAGTAATAGTGGAATTT
ATGGAAATTTCGGTCAAGCTAACTATTCAGCAGCAAAGCTCGGTTTAATTGGATTAGCTA
ACACAGTTGCAATTGAAGGTGCTAAATATAATGTTCATTGTAATACAATTTGTCCAACTG
CTGCATCAAGAATGACAAAAGGTATTTTACCTGATGATCTATTTGATGAAATGAAACCAG
AATTGATTGCACCAGTAGTGGTTTACTTATGTCATGAAGACACAATGGATAATGGTCAAG
TCATTGAGAGTGCAGTTGGTTTTGCAACAAAAGTTCATTTTGTACGAGGCAAGGGAAGTT
TAATTCGAGATAGCATCAAAGATGTTCCAACACCTGAAACTGTTAAGGCGAAATGGGGCA
AAATTACTGACATGAAGAATGCAAAGCATTTCAATTCAAATATGGAAGTCAGTTCTTCAT
TTGTCAGCGTTATGGATAGATTGAAAAATCCCTTGCCTAAAGATACATTTGAAGATACTT
ACACTTATACATTCCGTGACACAATTCTATATGCATTGGGAATTGGAGTTGGAACCGAAG
ATGAAAGCAATTTGAAATTCATTTATGAAAATCATCCAAACTTTGCCGCATTCCCAACTT
ATGCAGTTATTCCTTCTATTATTATGCTAATGACATCAAGCATAACACCATCAGCCCTGG
AAAACTTTGATCTTTCTCAA

>g12123.t4 Gene=g12123 Length=380
MVLRFDNRVVVVTGAGAGLGREYALLFGKRGAKVVVNDLGGNFHGEGNSSRAADLVVEEI
RKLGGTAVADYNSVVEGHKIIETAISNYGRIDVLVNNAGILRDKSIANISDNDWNLIHDV
HLKGSFMTTRAAWPYFKKQKFGRIIMTTSNSGIYGNFGQANYSAAKLGLIGLANTVAIEG
AKYNVHCNTICPTAASRMTKGILPDDLFDEMKPELIAPVVVYLCHEDTMDNGQVIESAVG
FATKVHFVRGKGSLIRDSIKDVPTPETVKAKWGKITDMKNAKHFNSNMEVSSSFVSVMDR
LKNPLPKDTFEDTYTYTFRDTILYALGIGVGTEDESNLKFIYENHPNFAAFPTYAVIPSI
IMLMTSSITPSALENFDLSQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g12123.t4 CDD cd05353 hydroxyacyl-CoA-like_DH_SDR_c-like 3 252 4.38202E-159
12 g12123.t4 Gene3D G3DSA:3.40.50.720 - 2 250 1.1E-72
14 g12123.t4 Gene3D G3DSA:3.30.160.260 - 251 304 2.1E-14
13 g12123.t4 Gene3D G3DSA:3.10.129.10 Hotdog Thioesterase 309 380 7.6E-19
2 g12123.t4 PANTHER PTHR45024 DEHYDROGENASES, SHORT CHAIN 2 303 2.4E-136
5 g12123.t4 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 9 26 3.7E-22
4 g12123.t4 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 89 100 6.8E-8
9 g12123.t4 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 89 100 3.7E-22
7 g12123.t4 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 136 152 3.7E-22
3 g12123.t4 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 162 181 6.8E-8
8 g12123.t4 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 162 181 3.7E-22
6 g12123.t4 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 206 226 3.7E-22
1 g12123.t4 Pfam PF00106 short chain dehydrogenase 9 194 7.4E-40
16 g12123.t4 ProSitePatterns PS00061 Short-chain dehydrogenases/reductases family signature. 149 177 -
17 g12123.t4 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.t4 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 1 245 1.26E-61
11 g12123.t4 SUPERFAMILY SSF54637 Thioesterase/thiol ester dehydrase-isomerase 311 378 2.8E-13

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