General information for g4120.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Aldehyde dehydrogenase X, mitochondrial.
Parent gene
- The parent gene g4120 is located on chr_3: 30730080..30735128 (- 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_3 | g4120 | g4120.t1 | TTS | g4120.t1 | 30727131 | 30727131 |
| chr_3 | g4120 | g4120.t1 | isoform | g4120.t1 | 30727171 | 30733217 |
| chr_3 | g4120 | g4120.t1 | exon | g4120.t1.exon1 | 30727171 | 30727823 |
| chr_3 | g4120 | g4120.t1 | cds | g4120.t1.CDS1 | 30727171 | 30727823 |
| chr_3 | g4120 | g4120.t1 | exon | g4120.t1.exon2 | 30727890 | 30727928 |
| chr_3 | g4120 | g4120.t1 | cds | g4120.t1.CDS2 | 30727890 | 30727928 |
| chr_3 | g4120 | g4120.t1 | exon | g4120.t1.exon3 | 30728136 | 30728445 |
| chr_3 | g4120 | g4120.t1 | cds | g4120.t1.CDS3 | 30728136 | 30728445 |
| chr_3 | g4120 | g4120.t1 | exon | g4120.t1.exon4 | 30728508 | 30728550 |
| chr_3 | g4120 | g4120.t1 | cds | g4120.t1.CDS4 | 30728508 | 30728550 |
| chr_3 | g4120 | g4120.t1 | exon | g4120.t1.exon5 | 30728606 | 30728731 |
| chr_3 | g4120 | g4120.t1 | cds | g4120.t1.CDS5 | 30728606 | 30728731 |
| chr_3 | g4120 | g4120.t1 | exon | g4120.t1.exon6 | 30728797 | 30729002 |
| chr_3 | g4120 | g4120.t1 | cds | g4120.t1.CDS6 | 30728797 | 30729002 |
| chr_3 | g4120 | g4120.t1 | exon | g4120.t1.exon7 | 30732949 | 30733117 |
| chr_3 | g4120 | g4120.t1 | cds | g4120.t1.CDS7 | 30732949 | 30733117 |
| chr_3 | g4120 | g4120.t1 | exon | g4120.t1.exon8 | 30733183 | 30733217 |
| chr_3 | g4120 | g4120.t1 | cds | g4120.t1.CDS8 | 30733183 | 30733217 |
| chr_3 | g4120 | g4120.t1 | TSS | g4120.t1 | NA | NA |
Sequences
>g4120.t1 Gene=g4120 Length=1581
ATGGATCAATCAGCTCGTGCAAGATTGATGCACAAACTCGCTGACTTGATTGATCGCGAT
TCGGACATTATTGCAAACGTTGAGTCTTTGGATAATGGAAACCTTTTAAAATGGCGAAAC
TCGATGTTTTTTTTTGTTCAATGTTGCTTCGTTATTATGCTGGTTATGCAGACAAATTTC
ACGGTAGGACAGTTCCAAGTGATGCTTTTTATCAACAACGAATTTGTTGAATCAGTTACC
AAAAAAACTTTTGTGACATCAAATCCAGCAAATGGTAAGAAACTTGCAGATGTTGCTGAG
GGCGATAAAGATGATGTAAATTTGGCCGTTGAAGCTGCGAAGAAAGCATTTAAAAGAAGC
TCAGAATGGAGAAATATGGATCAATCAGCTCGTGCAAGATTGATGCACAAACTCGCTGAC
TTGATTGATCGCGATTCGGACATTATTGCAAACGTTGAGTCTTTGGATAATGGAAAACCT
TTTAAAATGGCGAAACTCGATGTTTATTTTGTTCAATGTTGTTCGTTATTATGCTGTTAT
GTTCGAAAAGAACCAATTGGTGTATGCGGTCAAATTATTCCGTGGAACTATCCAGCATTG
ATGGTTGTCTTCAAGTTGGCACCTATTTTAGCAACCGGCTGCGTTTCAATTTTGAAACCA
GCAGAACAAACTCCACTTTCTGCACTTTATATTGCATCATTAGTCAAAGAAGCAGGAATA
CCTGCTGGCGTAGTTAACGTAATTACTGGCTATGGGCCAACAGCTGGTGCCGCTATTGCA
TCACATCCTGATATTCGCAAGGTTGCATTTACAGGTTCAACTGAAGTTGGAAAATTAATT
ATGGAAGCTGCTGCAAAATCTAATTTGAAGAAAGTTTCATTAGAGTTGGGTGGTAAGAGT
CCTCTTGTAATCTTTGATGATGTTAATCTTGATGAAGTTGTTCCACTTGCTCAAGATGCT
ATTTTTACAAACTCTGGTCAGATTTGTTGTGGAGGATCAAGAACATTTGTACAAGAAAGA
ATTTATGATGAATTTGTCAAACGTACTGTTGAAAATGCAAAAAAAAGAAAAGTTGGTTGT
CCATTCAAAGAGGATACTGTGCAAGGGCCACAAGTTGATCAAGATACATTTGATAAGATC
TTGAAATACATTGATTATGGCAAAGAAGATGGTGCAAAATTGGAAGCCGGTGGAAAGAGA
TGGGGCAATGAAGGTTTCTATATTGAACCAACTGTTTTCTCAAATGTTACTGACGATATG
CGCATTGCACAAGATGAAATTTTCGGACCTGTTCAATCGATTCTCAAGTTCAAGACAATT
GATGAAGTTATTGAGCGTGCTAATAATACAACTTATGGATTAGCTGCTGGTGTCTTTACA
AATGACATCAATAAAGCTTTGACATTTGCAAATGCAGTCGAAGCTGGATCAGTTTGGGTT
AATTGTTATAATGCAACAAATGTTTGCTCTCCTTTCGGAGGCTACAAACAGAGTGGTATT
GGAAGAGAATTGGGAGAAGAAGGAATCAATTTATACTTGGAAACTAAAGCAGTTTCTATT
AAATTACCAGCCAAAAATTAA
>g4120.t1 Gene=g4120 Length=526
MDQSARARLMHKLADLIDRDSDIIANVESLDNGNLLKWRNSMFFFVQCCFVIMLVMQTNF
TVGQFQVMLFINNEFVESVTKKTFVTSNPANGKKLADVAEGDKDDVNLAVEAAKKAFKRS
SEWRNMDQSARARLMHKLADLIDRDSDIIANVESLDNGKPFKMAKLDVYFVQCCSLLCCY
VRKEPIGVCGQIIPWNYPALMVVFKLAPILATGCVSILKPAEQTPLSALYIASLVKEAGI
PAGVVNVITGYGPTAGAAIASHPDIRKVAFTGSTEVGKLIMEAAAKSNLKKVSLELGGKS
PLVIFDDVNLDEVVPLAQDAIFTNSGQICCGGSRTFVQERIYDEFVKRTVENAKKRKVGC
PFKEDTVQGPQVDQDTFDKILKYIDYGKEDGAKLEAGGKRWGNEGFYIEPTVFSNVTDDM
RIAQDEIFGPVQSILKFKTIDEVIERANNTTYGLAAGVFTNDINKALTFANAVEAGSVWV
NCYNATNVCSPFGGYKQSGIGRELGEEGINLYLETKAVSIKLPAKN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g4120.t1 | Coils | Coil | Coil | 524 | 526 | - |
| 9 | g4120.t1 | Gene3D | G3DSA:3.40.605.10 | Aldehyde Dehydrogenase; Chain A | 81 | 518 | 2.1E-173 |
| 10 | g4120.t1 | Gene3D | G3DSA:3.40.309.10 | Aldehyde Dehydrogenase; Chain A | 301 | 490 | 2.1E-173 |
| 4 | g4120.t1 | PANTHER | PTHR11699:SF269 | ALDEHYDE DEHYDROGENASE, MITOCHONDRIAL-LIKE PROTEIN | 1 | 43 | 8.1E-234 |
| 7 | g4120.t1 | PANTHER | PTHR11699 | ALDEHYDE DEHYDROGENASE-RELATED | 1 | 43 | 8.1E-234 |
| 3 | g4120.t1 | PANTHER | PTHR11699:SF269 | ALDEHYDE DEHYDROGENASE, MITOCHONDRIAL-LIKE PROTEIN | 68 | 170 | 8.1E-234 |
| 6 | g4120.t1 | PANTHER | PTHR11699 | ALDEHYDE DEHYDROGENASE-RELATED | 68 | 170 | 8.1E-234 |
| 2 | g4120.t1 | PANTHER | PTHR11699:SF269 | ALDEHYDE DEHYDROGENASE, MITOCHONDRIAL-LIKE PROTEIN | 179 | 524 | 8.1E-234 |
| 5 | g4120.t1 | PANTHER | PTHR11699 | ALDEHYDE DEHYDROGENASE-RELATED | 179 | 524 | 8.1E-234 |
| 1 | g4120.t1 | Pfam | PF00171 | Aldehyde dehydrogenase family | 76 | 518 | 2.6E-162 |
| 12 | g4120.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 41 | - |
| 14 | g4120.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 42 | 60 | - |
| 13 | g4120.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 61 | 526 | - |
| 17 | g4120.t1 | ProSitePatterns | PS00687 | Aldehyde dehydrogenases glutamic acid active site. | 294 | 301 | - |
| 16 | g4120.t1 | ProSitePatterns | PS00070 | Aldehyde dehydrogenases cysteine active site. | 322 | 333 | - |
| 8 | g4120.t1 | SUPERFAMILY | SSF53720 | ALDH-like | 54 | 521 | 5.37E-165 |
| 15 | g4120.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 43 | 65 | - |
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:0016620 | oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor | MF |
| GO:0055114 | NA | NA |
| GO:0016491 | oxidoreductase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K00128 (aldehyde dehydrogenase (NAD+))
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.
