General information for g11700.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable delta-1-pyrroline-5-carboxylate synthase.
Parent gene
- The parent gene g11700 is located on chr_1: 17870794..17874538 (- 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 | g11700 | g11700.t3 | TTS | g11700.t3 | 17869854 | 17869854 |
| chr_1 | g11700 | g11700.t3 | isoform | g11700.t3 | 17870092 | 17871263 |
| chr_1 | g11700 | g11700.t3 | exon | g11700.t3.exon1 | 17870092 | 17870508 |
| chr_1 | g11700 | g11700.t3 | cds | g11700.t3.CDS1 | 17870465 | 17870508 |
| chr_1 | g11700 | g11700.t3 | exon | g11700.t3.exon2 | 17870571 | 17870708 |
| chr_1 | g11700 | g11700.t3 | cds | g11700.t3.CDS2 | 17870571 | 17870708 |
| chr_1 | g11700 | g11700.t3 | exon | g11700.t3.exon3 | 17870773 | 17871263 |
| chr_1 | g11700 | g11700.t3 | cds | g11700.t3.CDS3 | 17870773 | 17871211 |
| chr_1 | g11700 | g11700.t3 | TSS | g11700.t3 | NA | NA |
Sequences
>g11700.t3 Gene=g11700 Length=1046
TCACAGCATTGTTGGACGTATATTGCGACATACGAAATTGGCCGATGGCTTAATGTTGAA
ACAAATTACAGTGCCAATTGGCGTTTTATTGGTAATTTTTGAATCACGTCCAGACTCTTT
ACCACAAGTAGCAGCTTTGTCAATTGCAAGTGCAAATGGTTTACTTTTGAAAGGTGGCAA
GGAAGCGTCCCATAGCAATAAAGCACTCATGGAATTAGTAAAAGAAGCTCTTTCTACAGT
TGGTGCAACCAATGCAATATCACTCGTTTCGACACGTGAAGAAATATCAGATTTACTTGG
TATGGAAAAACACATTGATCTTATTATTCCACGCGGTTCTTCCGAACTGGTTAGAACGAT
CCAAAGTCAGTCACAAAGAATACCCGTCTTGGGTCATGCTGAAGGCATCTGTCATGTGTA
TGTTGATCGAGAGGCAGAACTTGCCAAGGCATTGAAAATAGTTCGCGATGCTAAATGTGA
TTATCCTGCAGCTTGCAATGCTATGGAAACATTACTGATCCATGAAGATTTATTTATGAA
TTCAAATGCTTCATTCTTTCATGATGTATGCAATATGTTGAAAAAAGAAGGTGTGACAAT
ATATTCGGGACCAAAATTAAATCAAGTAACATCTGACATTCGGACCACCACAAGCAAAAA
CAATGAAACATGAATACAGCGATCTTGCTTGTTGCATAGAAATTGTCAAAGATGTTGAAG
AAGCAATCGAACATATTAACCGTTTTGGAAGTTCACACACAGATGTTATCATTACTGAAA
ATAAGGAATCTGCAGAATATTTTCAAAAACAAGTTGATTCAGCCTGCGTTTTCCACAACG
CTTCATCAAGATTTGCCGATGGCTATCGTTTTGGACTCGGTGCAGAAGTAGGAATTTCAA
CTGCAAGGATTCATGCACGTGGACCAGTTGGTGTTGAAGGACTATTAAGCACAAAATGGA
TTTTGGATGGAGTTGACCACACAGCAGCTGAATTTAGTGAAAACGGTTCAAGACATTTTG
TTCATGAGCCACTTAAATTGGATTAA
>g11700.t3 Gene=g11700 Length=206
MLKQITVPIGVLLVIFESRPDSLPQVAALSIASANGLLLKGGKEASHSNKALMELVKEAL
STVGATNAISLVSTREEISDLLGMEKHIDLIIPRGSSELVRTIQSQSQRIPVLGHAEGIC
HVYVDREAELAKALKIVRDAKCDYPAACNAMETLLIHEDLFMNSNASFFHDVCNMLKKEG
VTIYSGPKLNQVTSDIRTTTSKNNET
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11700.t3 | Gene3D | G3DSA:3.40.605.10 | Aldehyde Dehydrogenase; Chain A | 1 | 122 | 5.5E-48 |
| 6 | g11700.t3 | Gene3D | G3DSA:3.40.309.10 | Aldehyde Dehydrogenase; Chain A | 123 | 206 | 4.8E-21 |
| 2 | g11700.t3 | PANTHER | PTHR11063 | GLUTAMATE SEMIALDEHYDE DEHYDROGENASE | 2 | 195 | 2.1E-83 |
| 3 | g11700.t3 | PANTHER | PTHR11063:SF8 | DELTA-1-PYRROLINE-5-CARBOXYLATE SYNTHASE | 2 | 195 | 2.1E-83 |
| 1 | g11700.t3 | Pfam | PF00171 | Aldehyde dehydrogenase family | 27 | 162 | 9.7E-8 |
| 8 | g11700.t3 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 9 | g11700.t3 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 10 | g11700.t3 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 16 | - |
| 11 | g11700.t3 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 20 | - |
| 7 | g11700.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 206 | - |
| 4 | g11700.t3 | SUPERFAMILY | SSF53720 | ALDH-like | 3 | 161 | 5.47E-41 |
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 gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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