General information for g9117.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Trifunctional enzyme subunit alpha, mitochondrial.
Parent gene
- The parent gene g9117 is located on chr_1: 221472..222354 (- 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 | g9117 | g9117.t1 | isoform | g9117.t1 | 219159 | 222072 |
| chr_1 | g9117 | g9117.t1 | exon | g9117.t1.exon1 | 219159 | 219343 |
| chr_1 | g9117 | g9117.t1 | cds | g9117.t1.CDS1 | 219159 | 219343 |
| chr_1 | g9117 | g9117.t1 | exon | g9117.t1.exon2 | 219397 | 219609 |
| chr_1 | g9117 | g9117.t1 | cds | g9117.t1.CDS2 | 219397 | 219609 |
| chr_1 | g9117 | g9117.t1 | exon | g9117.t1.exon3 | 219674 | 219704 |
| chr_1 | g9117 | g9117.t1 | cds | g9117.t1.CDS3 | 219674 | 219704 |
| chr_1 | g9117 | g9117.t1 | exon | g9117.t1.exon4 | 219770 | 220005 |
| chr_1 | g9117 | g9117.t1 | cds | g9117.t1.CDS4 | 219770 | 220005 |
| chr_1 | g9117 | g9117.t1 | exon | g9117.t1.exon5 | 220059 | 220202 |
| chr_1 | g9117 | g9117.t1 | cds | g9117.t1.CDS5 | 220059 | 220202 |
| chr_1 | g9117 | g9117.t1 | exon | g9117.t1.exon6 | 220262 | 220702 |
| chr_1 | g9117 | g9117.t1 | cds | g9117.t1.CDS6 | 220262 | 220702 |
| chr_1 | g9117 | g9117.t1 | exon | g9117.t1.exon7 | 220766 | 221272 |
| chr_1 | g9117 | g9117.t1 | cds | g9117.t1.CDS7 | 220766 | 221272 |
| chr_1 | g9117 | g9117.t1 | exon | g9117.t1.exon8 | 221337 | 221401 |
| chr_1 | g9117 | g9117.t1 | cds | g9117.t1.CDS8 | 221337 | 221401 |
| chr_1 | g9117 | g9117.t1 | exon | g9117.t1.exon9 | 221472 | 221877 |
| chr_1 | g9117 | g9117.t1 | cds | g9117.t1.CDS9 | 221472 | 221877 |
| chr_1 | g9117 | g9117.t1 | exon | g9117.t1.exon10 | 222003 | 222072 |
| chr_1 | g9117 | g9117.t1 | cds | g9117.t1.CDS10 | 222003 | 222072 |
| chr_1 | g9117 | g9117.t1 | TSS | g9117.t1 | 222169 | 222169 |
| chr_1 | g9117 | g9117.t1 | TTS | g9117.t1 | NA | NA |
Sequences
>g9117.t1 Gene=g9117 Length=2298
ATGGCTAGTTTGCGAGTTAAAGGATTTTTATCTACTATTACACGAGTGAAGAGAATTGGT
CTGCAGAATTCTTCTATCAACCAATTTAATCGTAATTGTTCATCGACGTCGGCAAAAAAT
ATCAAAACGTCCATTGTTGATAATGTACTTGTAATCAAATTAGATCAACCAGGCTCAAAA
GTTAATACTTTAGGAAAACAAATTACTAATGAATTTGAAGCAGTTCTTAAAGAGTTTGAG
ACAAATCCAGCTGTAAAGTCTGCTGTTCTCATATCTGGCAAGCCATCTTGTTTCGTAGCT
GGCGCAGATATAACAATGTTAGAAGAATGTAAAACAGAAAATGATGCCAGGAAGATCAGT
CATGAAGCTCAAATTATGTTTGATCGAATGGAAAAGTCAAATAAGCCCATTGTCTGTGCA
ATTCATGGAACATGTTTTGGAGGCGGATTAGAATTGGCGCTAGCATGCCATTATAGAATC
GCAACAAAAAGTAAAAAAACGGGTTTAGCTCTTCCTGAAGTTATGCTTGGCTTGTTACCT
GGTGCTGGAGGAACGCAACGTGTTCAAAAATTAACATCAATCCCTACCACACTCGATTTG
GCACTTACTGGAAAAACTGTAAAGGCTGATAAAGCAAAAAAAATTGGCTTAGTTGATTTG
CTTGTTGATGAATTGGGTCCAGGCTTGCACGATCCTTCAAAAAACACTTTGAAATATCTT
GAGGATACAGCAATTAAAGTTGCCAAAGATCTTGCAAGTGGTACAATCAAAGTGAATCGT
CAAAAGACTGGTGTAATCAATAAGATTACAGAAACAGCAATGGGATTTGATTTTGTAAAA
GATTTTATTTTTAAAAAAGCACGTCAACAAGTTATGAAAATGAGTAATGGTCTCTATCCT
GCACCTCTCAAGATTTTGGAAGTAGTTCGTACTGGTGCAGATAAAGGTTTTGAAGCAGGA
CTGGAAGCTGAAAGAAATGCTTTTGGAACATTATCTCAAACACCACAATCTAAAGGACTG
ATTTCACTTTTTAGAGGACAAACAGAATGCAAGAAAAATCGTTTTGGAAATCCCAGTCGA
CCTGTAAAAAATGTTGCTGTATTGGGCGCTGGATTGATGGGGGCTGGTATTGTTCAAGTA
ACAGTTGATAAAGGCTATAATGTCATAATGAAAGATGCAACAGAGGCTGGTTTATCAAGA
GGTATTGGACAAATACAAAAAGGTCTTGATGGTGCAGTAAAAAGAAAAAAAATTAGCAGT
TTGGATAAAGATAAAATAATGAGTAATTTAACATCGACATTGTCCTACGAACCTTTCAGA
AATGCAGATATAGTTATCGAAGCTGTTTTTGAGAATTTAGACATTAAACATCGTGTAATA
AAGGAAATGGAATCTGTCATTCCTGAACATTGCATTATTGCAACAAATACATCAGCTCTT
CCCATCACAAAAATTGCAGCCGGTTCATCAAGACCAGATAAAGTTATTGGCATGCACTAT
TTTTCACCAGTTGATAAGATGCAACTTTTGGAAATTATCACACATCCGGGCACATCTTTA
GAAGCAAAACAAGCAGCAGTTGATTTAGGACTGAAGCAAGGAAAAGTAGTTATTACAGTT
GGTGATGGACCAGGTTTTTATACAACTCGAATTCTTTCAACTATGGTTGCTGAGGGCATG
TTGATAATGCAAGAAGGTGTCGATCCAAAGGACATTGATAAACTCACAAAACAATTTGGT
TTCCCAGTTGGTCTTGCTACTTTAATTGATGAAGTGGGAATTGATGTTGGTATGCACATT
TTCAAAGACTTGCAAGCAGCTTTTGGTGATCGTTTATCAGGCGGTGACGCAAATATCTCA
GTAGATTTGGTTAAAGCAGGTTTCTTGGGAAGAAAATCAGGAAAAGGAATTTTCGTTTAT
GATGGTCAAACGAAAGGAAGTCGTGAAGTCAATCCTGAGGCATTAGCAATCATTAAACAA
AAATACGCTTTGGTGTCCAAAGGAGCAAATCAACCAGAAGATTTACAATTGAGAATGGTG
TCTAGATTTATTAATGAAGCCGTAATGTGTCTTGAAGAAAAGATTTTGCACAGTCCATTA
GAAGGTGATATTGGTGCCGTATTTGGTCTCGGATTCCCACCTTTTTCCGGTGGTCCATTT
AAATTTGTTGATACATTCGGAGCTGATAAGCTTGTAAACAAAATGCTATCATATGCAGAG
CTCTATGGAAGACCGTTTCAACCAGCTCAAACATTACTTGATATGGCAAAAGATTCATCA
AAGAAATTTTATAAATAA
>g9117.t1 Gene=g9117 Length=765
MASLRVKGFLSTITRVKRIGLQNSSINQFNRNCSSTSAKNIKTSIVDNVLVIKLDQPGSK
VNTLGKQITNEFEAVLKEFETNPAVKSAVLISGKPSCFVAGADITMLEECKTENDARKIS
HEAQIMFDRMEKSNKPIVCAIHGTCFGGGLELALACHYRIATKSKKTGLALPEVMLGLLP
GAGGTQRVQKLTSIPTTLDLALTGKTVKADKAKKIGLVDLLVDELGPGLHDPSKNTLKYL
EDTAIKVAKDLASGTIKVNRQKTGVINKITETAMGFDFVKDFIFKKARQQVMKMSNGLYP
APLKILEVVRTGADKGFEAGLEAERNAFGTLSQTPQSKGLISLFRGQTECKKNRFGNPSR
PVKNVAVLGAGLMGAGIVQVTVDKGYNVIMKDATEAGLSRGIGQIQKGLDGAVKRKKISS
LDKDKIMSNLTSTLSYEPFRNADIVIEAVFENLDIKHRVIKEMESVIPEHCIIATNTSAL
PITKIAAGSSRPDKVIGMHYFSPVDKMQLLEIITHPGTSLEAKQAAVDLGLKQGKVVITV
GDGPGFYTTRILSTMVAEGMLIMQEGVDPKDIDKLTKQFGFPVGLATLIDEVGIDVGMHI
FKDLQAAFGDRLSGGDANISVDLVKAGFLGRKSGKGIFVYDGQTKGSREVNPEALAIIKQ
KYALVSKGANQPEDLQLRMVSRFINEAVMCLEEKILHSPLEGDIGAVFGLGFPPFSGGPF
KFVDTFGADKLVNKMLSYAELYGRPFQPAQTLLDMAKDSSKKFYK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g9117.t1 | CDD | cd06558 | crotonase-like | 41 | 224 | 0 |
| 11 | g9117.t1 | Gene3D | G3DSA:3.90.226.10 | - | 37 | 357 | 0 |
| 9 | g9117.t1 | Gene3D | G3DSA:3.40.50.720 | - | 361 | 546 | 0 |
| 10 | g9117.t1 | Gene3D | G3DSA:1.10.1040.50 | - | 547 | 758 | 0 |
| 4 | g9117.t1 | PANTHER | PTHR43612 | TRIFUNCTIONAL ENZYME SUBUNIT ALPHA | 27 | 764 | 0 |
| 3 | g9117.t1 | Pfam | PF00378 | Enoyl-CoA hydratase/isomerase | 47 | 224 | 0 |
| 2 | g9117.t1 | Pfam | PF02737 | 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain | 364 | 542 | 0 |
| 1 | g9117.t1 | Pfam | PF00725 | 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain | 545 | 640 | 0 |
| 5 | g9117.t1 | SUPERFAMILY | SSF52096 | ClpP/crotonase | 40 | 352 | 0 |
| 6 | g9117.t1 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 361 | 544 | 0 |
| 8 | g9117.t1 | SUPERFAMILY | SSF48179 | 6-phosphogluconate dehydrogenase C-terminal domain-like | 544 | 648 | 0 |
| 7 | g9117.t1 | SUPERFAMILY | SSF48179 | 6-phosphogluconate dehydrogenase C-terminal domain-like | 672 | 764 | 0 |
| 12 | g9117.t1 | TIGRFAM | TIGR02441 | fa_ox_alpha_mit: fatty acid oxidation complex, alpha subunit, mitochondrial | 30 | 764 | 0 |
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:0016616 | oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor | MF |
| GO:0016507 | mitochondrial fatty acid beta-oxidation multienzyme complex | CC |
| GO:0003824 | catalytic activity | MF |
| GO:0055114 | NA | NA |
| GO:0006635 | fatty acid beta-oxidation | BP |
| GO:0070403 | NAD+ binding | MF |
| GO:0006631 | fatty acid metabolic process | BP |
| GO:0003857 | 3-hydroxyacyl-CoA dehydrogenase activity | MF |
| GO:0005739 | mitochondrion | CC |
| GO:0004300 | enoyl-CoA hydratase activity | MF |
| GO:0016491 | oxidoreductase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K07515 (enoyl-CoA hydratase / long-chain 3-hydroxyacyl-CoA dehydrogenase)
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.
