General information for g12123.t6
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.t6 | TSS | g12123.t6 | 21150894 | 21150894 |
| chr_1 | g12123 | g12123.t6 | isoform | g12123.t6 | 21150983 | 21154467 |
| chr_1 | g12123 | g12123.t6 | exon | g12123.t6.exon1 | 21150983 | 21150989 |
| chr_1 | g12123 | g12123.t6 | exon | g12123.t6.exon2 | 21151266 | 21151311 |
| chr_1 | g12123 | g12123.t6 | exon | g12123.t6.exon3 | 21151481 | 21151566 |
| chr_1 | g12123 | g12123.t6 | exon | g12123.t6.exon4 | 21151623 | 21151872 |
| chr_1 | g12123 | g12123.t6 | cds | g12123.t6.CDS1 | 21151713 | 21151872 |
| chr_1 | g12123 | g12123.t6 | exon | g12123.t6.exon5 | 21151944 | 21151985 |
| chr_1 | g12123 | g12123.t6 | cds | g12123.t6.CDS2 | 21151944 | 21151985 |
| chr_1 | g12123 | g12123.t6 | exon | g12123.t6.exon6 | 21152046 | 21152605 |
| chr_1 | g12123 | g12123.t6 | cds | g12123.t6.CDS3 | 21152046 | 21152605 |
| chr_1 | g12123 | g12123.t6 | exon | g12123.t6.exon7 | 21152703 | 21152826 |
| chr_1 | g12123 | g12123.t6 | cds | g12123.t6.CDS4 | 21152703 | 21152826 |
| chr_1 | g12123 | g12123.t6 | exon | g12123.t6.exon8 | 21152896 | 21153096 |
| chr_1 | g12123 | g12123.t6 | cds | g12123.t6.CDS5 | 21152896 | 21153096 |
| chr_1 | g12123 | g12123.t6 | exon | g12123.t6.exon9 | 21153157 | 21153426 |
| chr_1 | g12123 | g12123.t6 | cds | g12123.t6.CDS6 | 21153157 | 21153426 |
| chr_1 | g12123 | g12123.t6 | exon | g12123.t6.exon10 | 21153593 | 21153799 |
| chr_1 | g12123 | g12123.t6 | cds | g12123.t6.CDS7 | 21153593 | 21153799 |
| chr_1 | g12123 | g12123.t6 | exon | g12123.t6.exon11 | 21154256 | 21154467 |
| chr_1 | g12123 | g12123.t6 | cds | g12123.t6.CDS8 | 21154256 | 21154467 |
| chr_1 | g12123 | g12123.t6 | TTS | g12123.t6 | 21154817 | 21154817 |
Sequences
>g12123.t6 Gene=g12123 Length=2005
ACGAAAGTCCTTCTGCAATCATGGTTTTGAGATTTGACAATCGTGTTGTTGTTTTGCTGA
TTACAATAGTGTCGTCGAAGGACATAAAATTATTGAAACTGCAATTTCAAATTATGGACG
CATTGATGTGCTTGTTAATAATGCCGGAATTCTTCGTGATAAATCAATTGCCAACATCTC
GGATAATGACTGGAATTTAATTCATGATGTTCACTTAAAGGGAAGCTTCATGACAACTCG
TGCTGCTTGGCCATACTTTAAAAAACAAAAGTTCGGTCGTATTATAATGACCACCAGTAA
TAGTGGAATTTATGGAAATTTCGGTCAAGCTAACTATTCAGCAGCAAAGCTCGGTTTAAT
TGGATTAGCTAACACAGTTGCAATTGAAGGTGCTAAATATAATGTTCATTGTAATACAAT
TTGTCCAACTGCTGCATCAAGAATGACAAAAGGTATTTTACCTGATGATCTATTTGATGA
AATGAAACCAGAATTGATTGCACCAGTAGTGGTTTACTTATGTCATGAAGACACAATGGA
TAATGGTCAAGTCATTGAGAGTGCAGTTGGTTTTGCAACAAAAGTTCATTTTGTACGAGG
CAAGGGAAGTTTAATTCGAGATAGCATCAAAGATGTTCCAACACCTGAAACTGTTAAGGC
GAAATGGGGCAAAATTACTGACATGAAGAATGCAAAGCATTTCAATTCAAATATGGAAGT
CAGTTCTTCATTTGTCAGCGTTATGGATAGATTGAAAAATCCCTTGCCTAAAGATACATT
TGAAGATACTTACACTTATACATTCCGTGACACAATTCTATATGCATTGGGAATTGGAGT
TGGAACCGAAGATGAAAGCAATTTGAAATTCATTTATGAAAATCATCCAAACTTTGCCGC
ATTCCCAACTTATGCAGTTATTCCTTCTATTATTATGCTAATGACATCAAGCATAACACC
ATCAGCCCTGGAAAACTTTGATCTTTCTCAAGTCTTGCATGGCGAACAATTTATTGAAAT
TGTAAATCCTATGAGAACAGAAGGAACACTTACAACTCGTGGAAATGTGATTGATGTTCA
ACAGAAAAAATCTGGTGTTGTTGTTACTACTGAATGTCTTTCATATGATGAAGGCGGTCA
ACTTATGACACGATCACAGTCAAGTACATTCATTGTACGCGGAAAATCAAACGGAAAATA
TGGTGGAAATCCAGAAAAAGTGATCAACATTATACCAAATCCAAGCAGACAACCTGATCA
CACTTCGATTGTCAAGACGAATGTTGATCAAGCTGCTTTATATCGTCTTTCAGGCGATCT
CAATCCATTGCACATCGATCCAAATTTTGCACTTCTTGGTGGTTTTAATCGTCCAATTAT
TCACGGTTTGTGCACTTTCGGTGTCTCTGTTCGTGCAGTGTTGAAACAATATGCTGATAA
TGACCCATCACTTTTCAAGGCTGTTAAAGTTCGTTTTACTAAACCTGTTTTTCCTGGTGA
TACCTTGAAAGTTGAGATGTGGCAAGAAGGCAACAGAATTCATTTTAGAACTCTTCTCGC
TGAGTCTAACACTGAAGTTATTAGTGGCGCTTATGTGGATTTATTGAACGTTATAAAATC
GACATCAACATCAGAAAGCATTCCACAGTCATCTAGCAACATGGCACTTCAATCGGACGC
AGTTTTTGCAGCAATTAAAGAACGAGTCAATGCTGATAAAGCAAAGGCAAAAAGTGTTAA
TGGAGTTTTTCTTTATAAAATTACAAAGGATGGAAAAGTTGCAAAAGAATGGACATTGGA
TTTGAAAAATGCAGTTATATCAGAAGGTGCACCATCAGGAAAAGCCGATACAACAATCAC
TATTGCTGATGAAGACTTTATTGATATTGCCCTTGGTAAATTAAATCCACAACAAGCATT
CATGAAGGGAAAACTAAAGATTCAGGGAAATATTATGCTGGCACAAAAACTCAGCCCACT
ACTCAAGACAGATGCTAAATTGTAA
>g12123.t6 Gene=g12123 Length=591
MTTRAAWPYFKKQKFGRIIMTTSNSGIYGNFGQANYSAAKLGLIGLANTVAIEGAKYNVH
CNTICPTAASRMTKGILPDDLFDEMKPELIAPVVVYLCHEDTMDNGQVIESAVGFATKVH
FVRGKGSLIRDSIKDVPTPETVKAKWGKITDMKNAKHFNSNMEVSSSFVSVMDRLKNPLP
KDTFEDTYTYTFRDTILYALGIGVGTEDESNLKFIYENHPNFAAFPTYAVIPSIIMLMTS
SITPSALENFDLSQVLHGEQFIEIVNPMRTEGTLTTRGNVIDVQQKKSGVVVTTECLSYD
EGGQLMTRSQSSTFIVRGKSNGKYGGNPEKVINIIPNPSRQPDHTSIVKTNVDQAALYRL
SGDLNPLHIDPNFALLGGFNRPIIHGLCTFGVSVRAVLKQYADNDPSLFKAVKVRFTKPV
FPGDTLKVEMWQEGNRIHFRTLLAESNTEVISGAYVDLLNVIKSTSTSESIPQSSSNMAL
QSDAVFAAIKERVNADKAKAKSVNGVFLYKITKDGKVAKEWTLDLKNAVISEGAPSGKAD
TTITIADEDFIDIALGKLNPQQAFMKGKLKIQGNIMLAQKLSPLLKTDAKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 18 | g12123.t6 | CDD | cd03448 | HDE_HSD | 338 | 458 | 9.6153E-67 |
| 14 | g12123.t6 | Gene3D | G3DSA:3.40.50.720 | - | 1 | 124 | 1.6E-31 |
| 17 | g12123.t6 | Gene3D | G3DSA:3.30.160.260 | - | 125 | 178 | 3.9E-14 |
| 16 | g12123.t6 | Gene3D | G3DSA:3.10.129.10 | Hotdog Thioesterase | 181 | 467 | 4.3E-91 |
| 15 | g12123.t6 | Gene3D | G3DSA:3.30.1050.10 | - | 473 | 588 | 2.4E-42 |
| 4 | g12123.t6 | PANTHER | PTHR13078:SF56 | PEROXISOMAL MULTIFUNCTIONAL ENZYME TYPE 2 | 36 | 461 | 1.2E-121 |
| 5 | g12123.t6 | PANTHER | PTHR13078 | PEROXISOMAL MULTIFUNCTIONAL ENZYME TYPE 2-RELATED | 36 | 461 | 1.2E-121 |
| 6 | g12123.t6 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 10 | 26 | 2.3E-6 |
| 7 | g12123.t6 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 36 | 55 | 2.3E-6 |
| 8 | g12123.t6 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 80 | 100 | 2.3E-6 |
| 2 | g12123.t6 | Pfam | PF00106 | short chain dehydrogenase | 2 | 68 | 1.5E-14 |
| 3 | g12123.t6 | Pfam | PF01575 | MaoC like domain | 338 | 452 | 1.8E-34 |
| 1 | g12123.t6 | Pfam | PF02036 | SCP-2 sterol transfer family | 488 | 586 | 1.1E-24 |
| 13 | g12123.t6 | ProSitePatterns | PS00061 | Short-chain dehydrogenases/reductases family signature. | 23 | 51 | - |
| 9 | g12123.t6 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 2 | 119 | 1.13E-25 |
| 11 | g12123.t6 | SUPERFAMILY | SSF54637 | Thioesterase/thiol ester dehydrase-isomerase | 185 | 323 | 1.05E-35 |
| 10 | g12123.t6 | SUPERFAMILY | SSF54637 | Thioesterase/thiol ester dehydrase-isomerase | 338 | 455 | 1.07E-30 |
| 12 | g12123.t6 | SUPERFAMILY | SSF55718 | SCP-like | 478 | 586 | 1.77E-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.
