General information for g12123.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Peroxisomal multifunctional enzyme type 2.
Parent gene
- The parent gene g12123 is located on chr_1: 21153582..21154814 (+ strand)
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.t10 | TSS | g12123.t10 | 21151265 | 21151265 |
| chr_1 | g12123 | g12123.t10 | isoform | g12123.t10 | 21151279 | 21154814 |
| chr_1 | g12123 | g12123.t10 | exon | g12123.t10.exon1 | 21151279 | 21151566 |
| chr_1 | g12123 | g12123.t10 | cds | g12123.t10.CDS1 | 21151279 | 21151566 |
| chr_1 | g12123 | g12123.t10 | exon | g12123.t10.exon2 | 21151623 | 21151872 |
| chr_1 | g12123 | g12123.t10 | cds | g12123.t10.CDS2 | 21151623 | 21151872 |
| chr_1 | g12123 | g12123.t10 | exon | g12123.t10.exon3 | 21151944 | 21151985 |
| chr_1 | g12123 | g12123.t10 | cds | g12123.t10.CDS3 | 21151944 | 21151985 |
| chr_1 | g12123 | g12123.t10 | exon | g12123.t10.exon4 | 21152046 | 21152605 |
| chr_1 | g12123 | g12123.t10 | cds | g12123.t10.CDS4 | 21152046 | 21152605 |
| chr_1 | g12123 | g12123.t10 | exon | g12123.t10.exon5 | 21152703 | 21152826 |
| chr_1 | g12123 | g12123.t10 | cds | g12123.t10.CDS5 | 21152703 | 21152826 |
| chr_1 | g12123 | g12123.t10 | exon | g12123.t10.exon6 | 21152896 | 21153100 |
| chr_1 | g12123 | g12123.t10 | cds | g12123.t10.CDS6 | 21152896 | 21153100 |
| chr_1 | g12123 | g12123.t10 | exon | g12123.t10.exon7 | 21153157 | 21153423 |
| chr_1 | g12123 | g12123.t10 | cds | g12123.t10.CDS7 | 21153157 | 21153157 |
| chr_1 | g12123 | g12123.t10 | exon | g12123.t10.exon8 | 21153593 | 21153799 |
| chr_1 | g12123 | g12123.t10 | exon | g12123.t10.exon9 | 21154256 | 21154814 |
| chr_1 | g12123 | g12123.t10 | TTS | g12123.t10 | 21154817 | 21154817 |
Sequences
>g12123.t10 Gene=g12123 Length=2502
ATGGTTTTGAGATTTGACAATCGTGTTGTTGTTGTAACTGGTGCAGGTGCTGGTTTAGGT
AGAGAATATGCACTTTTATTTGGCAAGCGTGGTGCTAAAGTGGTTGTGAACGATCTTGGT
GGCAATTTTCATGGTGAAGGAAACTCATCTAGAGCTGCAGACTTGGTTGTAGAAGAAATT
AGAAAACTTGGAGGAACAGCAGTTGCTGATTACAATAGTGTCGTCGAAGGACATAAAATT
ATTGAAACTGCAATTTCAAATTATGGACGCATTGATGTGCTTGTTAATAATGCCGGAATT
CTTCGTGATAAATCAATTGCCAACATCTCGGATAATGACTGGAATTTAATTCATGATGTT
CACTTAAAGGGAAGCTTCATGACAACTCGTGCTGCTTGGCCATACTTTAAAAAACAAAAG
TTCGGTCGTATTATAATGACCACCAGTAATAGTGGAATTTATGGAAATTTCGGTCAAGCT
AACTATTCAGCAGCAAAGCTCGGTTTAATTGGATTAGCTAACACAGTTGCAATTGAAGGT
GCTAAATATAATGTTCATTGTAATACAATTTGTCCAACTGCTGCATCAAGAATGACAAAA
GGTATTTTACCTGATGATCTATTTGATGAAATGAAACCAGAATTGATTGCACCAGTAGTG
GTTTACTTATGTCATGAAGACACAATGGATAATGGTCAAGTCATTGAGAGTGCAGTTGGT
TTTGCAACAAAAGTTCATTTTGTACGAGGCAAGGGAAGTTTAATTCGAGATAGCATCAAA
GATGTTCCAACACCTGAAACTGTTAAGGCGAAATGGGGCAAAATTACTGACATGAAGAAT
GCAAAGCATTTCAATTCAAATATGGAAGTCAGTTCTTCATTTGTCAGCGTTATGGATAGA
TTGAAAAATCCCTTGCCTAAAGATACATTTGAAGATACTTACACTTATACATTCCGTGAC
ACAATTCTATATGCATTGGGAATTGGAGTTGGAACCGAAGATGAAAGCAATTTGAAATTC
ATTTATGAAAATCATCCAAACTTTGCCGCATTCCCAACTTATGCAGTTATTCCTTCTATT
ATTATGCTAATGACATCAAGCATAACACCATCAGCCCTGGAAAACTTTGATCTTTCTCAA
GTCTTGCATGGCGAACAATTTATTGAAATTGTAAATCCTATGAGAACAGAAGGAACACTT
ACAACTCGTGGAAATGTGATTGATGTTCAACAGAAAAAATCTGGTGTTGTTGTTACTACT
GAATGTCTTTCATATGATGAAGGCGGTCAACTTATGACACGATCACAGTCAAGTACATTC
ATTGTACGCGGAAAATCAAACGGAAAATATGGTGGAAATCCAGAAAAAGTGATCAACATT
ATACCAAATCCAAGCAGACAACCTGATCACACTTCGATTGTCAAGACGAATGTTGATCAA
GCTGCTTTATATCGTCTTTCAGGCGGTTAATCTCAATCCATTGCACATCGATCCAAATTT
TGCACTTCTTGGTGGTTTTAATCGTCCAATTATTCACGGTTTGTGCACTTTCGGTGTCTC
TGTTCGTGCAGTGTTGAAACAATATGCTGATAATGACCCATCACTTTTCAAGGCTGTTAA
AGTTCGTTTTACTAAACCTGTTTTTCCTGGTGATACCTTGAAAGTTGAGATGTGGCAAGA
AGGCAACAGAATTCATTTTAGAACTCTTCTCGCTGAGTCTAACACTGAAGTTATTAGCGC
TTATGTGGATTTATTGAACGTTATAAAATCGACATCAACATCAGAAAGCATTCCACAGTC
ATCTAGCAACATGGCACTTCAATCGGACGCAGTTTTTGCAGCAATTAAAGAACGAGTCAA
TGCTGATAAAGCAAAGGCAAAAAGTGTTAATGGAGTTTTTCTTTATAAAATTACAAAGGA
TGGAAAAGTTGCAAAAGAATGGACATTGGATTTGAAAAATGCAGTTATATCAGAAGGTGC
ACCATCAGGAAAAGCCGATACAACAATCACTATTGCTGATGAAGACTTTATTGATATTGC
CCTTGGTAAATTAAATCCACAACAAGCATTCATGAAGGGAAAACTAAAGATTCAGGGAAA
TATTATGCTGGCACAAAAACTCAGCCCACTACTCAAGACAGATGCTAAATTGTAAAGCGG
ATAGTAACAAAAATACACAATTATTTTGTTCATATGACTGCGTGTGTCAATCAACGACTC
TTTTCATTATTTTTTTGTCATTCTGCTGGGCAATATATGTATAATTATAGACACAAATAT
CGCTTTAATTGCAATTATATTCCAAAATGAAATTTTAGCTCATAAGCAATTTTTTACTTC
TTATCAACTTATTTCTTTCCAATGGTGGTCAAGAAAAATTAATTTAATGTTTTGAGAAGA
AATTAAAATTAAATTGACATTCATTTTTTTAAATGTGTTTTGTATAATGCTAATTTGATG
AGGGATTTTATAATAAAATGAAAACTGGGGCTTATAAGAAAA
>g12123.t10 Gene=g12123 Length=489
MVLRFDNRVVVVTGAGAGLGREYALLFGKRGAKVVVNDLGGNFHGEGNSSRAADLVVEEI
RKLGGTAVADYNSVVEGHKIIETAISNYGRIDVLVNNAGILRDKSIANISDNDWNLIHDV
HLKGSFMTTRAAWPYFKKQKFGRIIMTTSNSGIYGNFGQANYSAAKLGLIGLANTVAIEG
AKYNVHCNTICPTAASRMTKGILPDDLFDEMKPELIAPVVVYLCHEDTMDNGQVIESAVG
FATKVHFVRGKGSLIRDSIKDVPTPETVKAKWGKITDMKNAKHFNSNMEVSSSFVSVMDR
LKNPLPKDTFEDTYTYTFRDTILYALGIGVGTEDESNLKFIYENHPNFAAFPTYAVIPSI
IMLMTSSITPSALENFDLSQVLHGEQFIEIVNPMRTEGTLTTRGNVIDVQQKKSGVVVTT
ECLSYDEGGQLMTRSQSSTFIVRGKSNGKYGGNPEKVINIIPNPSRQPDHTSIVKTNVDQ
AALYRLSGG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g12123.t10 | CDD | cd05353 | hydroxyacyl-CoA-like_DH_SDR_c-like | 3 | 252 | 2.16145E-158 |
| 13 | g12123.t10 | Gene3D | G3DSA:3.40.50.720 | - | 2 | 250 | 2.2E-72 |
| 15 | g12123.t10 | Gene3D | G3DSA:3.30.160.260 | - | 251 | 304 | 3.0E-14 |
| 14 | g12123.t10 | Gene3D | G3DSA:3.10.129.10 | Hotdog Thioesterase | 307 | 489 | 4.2E-46 |
| 3 | g12123.t10 | PANTHER | PTHR45024 | DEHYDROGENASES, SHORT CHAIN | 2 | 303 | 3.9E-136 |
| 6 | g12123.t10 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 9 | 26 | 1.1E-21 |
| 5 | g12123.t10 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 89 | 100 | 1.1E-7 |
| 10 | g12123.t10 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 89 | 100 | 1.1E-21 |
| 8 | g12123.t10 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 136 | 152 | 1.1E-21 |
| 4 | g12123.t10 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 162 | 181 | 1.1E-7 |
| 9 | g12123.t10 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 162 | 181 | 1.1E-21 |
| 7 | g12123.t10 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 206 | 226 | 1.1E-21 |
| 2 | g12123.t10 | Pfam | PF00106 | short chain dehydrogenase | 9 | 194 | 1.4E-39 |
| 1 | g12123.t10 | Pfam | PF13452 | N-terminal half of MaoC dehydratase | 367 | 425 | 1.5E-4 |
| 17 | g12123.t10 | ProSitePatterns | PS00061 | Short-chain dehydrogenases/reductases family signature. | 149 | 177 | - |
| 18 | g12123.t10 | 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 |
| 11 | g12123.t10 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 1 | 245 | 2.61E-61 |
| 12 | g12123.t10 | SUPERFAMILY | SSF54637 | Thioesterase/thiol ester dehydrase-isomerase | 311 | 449 | 3.62E-35 |
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
Orthology
- This transcript has been annotated with K12405 ((3R)-3-hydroxyacyl-CoA dehydrogenase / 3a,7a,12a-trihydroxy-5b-cholest-24-enoyl-CoA hydratase / enoyl-CoA hydratase 2 [EC:1.1.1.- 4.2.1.107 4.2.1.119])
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